PCA, annotation, fgsea, and target venn diagrams

unfiltered PCA of all samples (Figure S3D)

input file “final_samples_KRG.txt” is available in my Github input file “KRG_all_final_peaksDF_finalGRs_rename.txt” was generated from Processing_to_matrix script and is available in my Github

#read in all peaks from matrix building; input file is peak matrix with boolean for whether or not a peak was called, and the counts overlapping the peak ranges, by sample, generated in the processing script
all <- read.delim("/Users/kathryn/Reprocess_all_paper_datasets/KRG_all_final_peaksDF_finalGRs_rename.txt", header = TRUE, sep = "\t")

all_samples <- read.delim("/Users/kathryn/Reprocess_all_paper_datasets/final_samples_KRG.txt", header = TRUE, sep = "\t")

row.names(all_samples) <- all_samples$X
all_samples <- all_samples[,2:4]
m_all <- row.names(all_samples)
colnames(all) <- gsub("_rm5_rm3.bed", "", colnames(all))
row.names(all) <- all$peakID

#check that sample names match
m_all %in% colnames(all)

##  [1] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [15] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [29] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [43] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [57] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [71] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [85] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE

all_x <- all[m_all]

dds_all <- DESeqDataSetFromMatrix(countData = all_x, colData = all_samples, design = ~ Experiment + Antibody + Lysate)

dds_all <- estimateSizeFactors(dds_all,type="poscounts")

rld_all <- varianceStabilizingTransformation(dds_all)

p <-  plotPCA(rld_all,intgroup=c("Experiment", "Antibody", "Lysate"), ntop=10^6, returnData=TRUE)

#reorder/rename levels so can set colors/shapes 
p$group <- paste0(p$Antibody, "/", p$Lysate)
p$group <- as.factor(p$group)
p$group <- factor(p$group, levels = c("Ago1/Aag2", "Ago1/aegypti","rIgG/Aag2", "rIgG/aegypti", "Ago2/Aag2","Ago2/aegypti", "mIgG/Aag2","mIgG/aegypti"))

#set PC1 direction to be consistent with subsequent PCAs
p$PC1 <- (p$PC1)*-1
#calculate variation as a rounded percent
percentVar <- round(100 * attr(p, "percentVar")) 

ggplot(p, aes(x = PC1, y = PC2, color = group, shape = Experiment, label=name)) +
geom_point(size =3) + 
scale_shape_manual(values=c(0,3,5, 8, 4,1, 2, 6)) + 
scale_color_manual(values =c("#1B0B80", "#3360A9",  "#64C3DB", "#D2E1E5", "#8A0F09","#FA0F0C", "#F87F11", "#F4DBC7"), name="Antibody/Lysate") +
xlab(paste0("PC1: ", percentVar[1], "% variance")) + 
ylab(paste0("PC2: ", percentVar[2], "% variance")) + theme_bw()

Annotate and filter for PCA calculations

input gtf file used to be available for download at Vectorbase However, I am unsure if the gtf file is still available there; it is too large to upload to Github, but is available upon request

gtffile <- "/Users/kathryn/Aedes-aegypti-LVP_AGWG_BASEFEATURES_AaegL5.2.gtf"

TxDb <- makeTxDbFromGFF(gtffile)

## Import genomic features from the file as a GRanges object ... OK
## Prepare the 'metadata' data frame ... OK
## Make the TxDb object ...

## Warning in .get_cds_IDX(type, phase): The "phase" metadata column contains non-NA values for features of
##   type stop_codon. This information was ignored.

## OK

allGR <- makeGRangesFromDataFrame(all,
                                     keep.extra.columns=FALSE,
                                     ignore.strand=FALSE,
                                     seqinfo=NULL,
                                     seqnames.field="seqnames",
                                     start.field="start",
                                     end.field="end",
                                     strand.field="strand",
                                     starts.in.df.are.0based=FALSE)

allanno <- annotatePeak(allGR,
                              TxDb=TxDb,
                              sameStrand=FALSE,
                              genomicAnnotationPriority = c("3UTR", "5UTR", "Exon",
                                                            "Intron", "Promoter", "Downstream", "Intergenic"),
                              overlap = "all")

## >> preparing features information...      2021-03-16 17:11:40 
## >> identifying nearest features...        2021-03-16 17:11:40

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## >> calculating distance from peak to TSS...   2021-03-16 17:11:44 
## >> assigning genomic annotation...        2021-03-16 17:11:44

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## >> assigning chromosome lengths           2021-03-16 17:11:48 
## >> done...                    2021-03-16 17:11:48

allannodf <- as.data.frame(allanno)

allannodf$peakID <- paste0(allannodf$seqnames, ":", allannodf$start, "_", allannodf$end, ":", allannodf$strand)

v <- merge(all, allannodf[,c(6:15)], by="peakID", all.x=TRUE)
all <- v

#get peak biological complexity (BC) - in how many samples by antibody/lysate was a peak called 

#first define boolean columns, with TRUE/FALSE if the peak was called in that sample
bool <- grep("*.txt", colnames(all), value = TRUE)

temp <- strsplit(bool, "_")
mat  <- matrix(unlist(temp), ncol=6, byrow=TRUE)
mat <- mat[,2:3]
df <- cbind(bool, mat)
col.names <- c("name", "Lysate", "Antibody")
df <- as.data.frame(df)
df <- setNames(df, col.names)
df$group <- paste0(df$Lysate, df$Antibody)
df_group <- df %>% group_by(group)
df_group$name <- as.character(df_group$name)
aegyptiAgo1 <- subset(df_group$name, df_group$group == "aegyptiAgo1")
aegyptiAgo2 <- subset(df_group$name, df_group$group == "aegyptiAgo2")
aegyptirIgG <- subset(df_group$name, df_group$group == "aegyptirIgG")
aegyptimIgG <- subset(df_group$name, df_group$group == "aegyptimIgG")
Aag2Ago1 <- subset(df_group$name, df_group$group == "Aag2Ago1")
Aag2Ago2 <- subset(df_group$name, df_group$group == "Aag2Ago2")
Aag2rIgG <- subset(df_group$name, df_group$group == "Aag2rIgG")
Aag2mIgG <- subset(df_group$name, df_group$group == "Aag2mIgG")

#then count peakBC
all$aegyptiAgo1_peakBC <- rowSums(all[aegyptiAgo1])
all$aegyptiAgo2_peakBC <- rowSums(all[aegyptiAgo2])
all$aegyptirIgG_peakBC <- rowSums(all[aegyptirIgG])
all$aegyptimIgG_peakBC <- rowSums(all[aegyptimIgG])
all$Aag2Ago1_peakBC <- rowSums(all[Aag2Ago1])
all$Aag2Ago2_peakBC <- rowSums(all[Aag2Ago2])
all$Aag2rIgG_peakBC <- rowSums(all[Aag2rIgG])
all$Aag2mIgG_peakBC <- rowSums(all[Aag2mIgG])

#define read count columns, which contain raw read counts at each peak region by sample
aegyptiAgo1b <- gsub("_rm5_rm3.txt", "", aegyptiAgo1)
aegyptiAgo2b <- gsub("_rm5_rm3.txt", "", aegyptiAgo2)
aegyptirIgGb <- gsub("_rm5_rm3.txt", "", aegyptirIgG)
aegyptimIgGb <- gsub("_rm5_rm3.txt", "", aegyptimIgG)
Aag2Ago1b <- gsub("_rm5_rm3.txt", "", Aag2Ago1)
Aag2Ago2b <- gsub("_rm5_rm3.txt", "", Aag2Ago2)
Aag2rIgGb <- gsub("_rm5_rm3.txt", "",Aag2rIgG)
Aag2mIgGb <- gsub("_rm5_rm3.txt", "", Aag2mIgG)

#get total counts by antibody/lysate
all$aegyptiAgo1_counts <- rowSums(all[aegyptiAgo1b])
all$aegyptiAgo2_counts <- rowSums(all[aegyptiAgo2b])
all$aegyptirIgG_counts <- rowSums(all[aegyptirIgGb])
all$aegyptimIgG_counts <- rowSums(all[aegyptimIgGb])
all$Aag2Ago1_counts <- rowSums(all[Aag2Ago1b])
all$Aag2Ago2_counts <- rowSums(all[Aag2Ago2b])
all$Aag2rIgG_counts <- rowSums(all[Aag2rIgGb])
all$Aag2mIgG_counts <- rowSums(all[Aag2mIgGb])

#get normalized counts in reads per million mapped (in peaks)
all$aegyptiAgo1_counts_norm <- (all$aegyptiAgo1_counts)/(sum(all$aegyptiAgo1_counts))*1E6
all$aegyptiAgo2_counts_norm <- (all$aegyptiAgo2_counts)/(sum(all$aegyptiAgo2_counts))*1E6
all$aegyptirIgG_counts_norm <- (all$aegyptirIgG_counts)/(sum(all$aegyptirIgG_counts))*1E6
all$aegyptimIgG_counts_norm <- (all$aegyptimIgG_counts)/(sum(all$aegyptimIgG_counts))*1E6
all$Aag2Ago1_counts_norm <- (all$Aag2Ago1_counts)/(sum(all$Aag2Ago1_counts))*1E6
all$Aag2Ago2_counts_norm <- (all$Aag2Ago2_counts)/(sum(all$Aag2Ago2_counts))*1E6
all$Aag2rIgG_counts_norm <- (all$Aag2rIgG_counts)/(sum(all$Aag2rIgG_counts))*1E6
all$Aag2mIgG_counts_norm <- (all$Aag2mIgG_counts)/(sum(all$Aag2mIgG_counts))*1E6

#Specific ab > 10X higher than IgG (norm counts)
all$aegypti_Ago1_over_rIgG <- ifelse(all$aegyptiAgo1_counts_norm >= (10 * all$aegyptirIgG_counts_norm), paste0("TRUE"), paste0("FALSE"))
all$aegypti_Ago1_over_rIgG <- ifelse(all$aegyptiAgo1_counts_norm == all$aegyptirIgG_counts_norm, paste0("FALSE"), paste0(all$aegypti_Ago1_over_rIgG))

all$aegypti_Ago2_over_mIgG <- ifelse(all$aegyptiAgo2_counts_norm >= (10 * all$aegyptimIgG_counts_norm), paste0("TRUE"), paste0("FALSE"))
all$aegypti_Ago2_over_mIgG <- ifelse(all$aegyptiAgo2_counts_norm == all$aegyptimIgG_counts_norm, paste0("FALSE"), paste0(all$aegypti_Ago2_over_mIgG))

all$Aag2_Ago1_over_rIgG <- ifelse(all$Aag2Ago1_counts_norm >= (10 * all$Aag2rIgG_counts_norm), paste0("TRUE"), paste0("FALSE"))
all$Aag2_Ago1_over_rIgG <- ifelse(all$Aag2Ago1_counts_norm == all$Aag2rIgG_counts_norm, paste0("FALSE"), paste0(all$Aag2_Ago1_over_rIgG))

all$Aag2_Ago2_over_mIgG <- ifelse(all$Aag2Ago2_counts_norm >= (10 * all$Aag2mIgG_counts_norm), paste0("TRUE"), paste0("FALSE")) 
all$Aag2_Ago2_over_mIgG <- ifelse(all$Aag2Ago2_counts_norm == all$Aag2mIgG_counts_norm, paste0("FALSE"), paste0(all$Aag2_Ago2_over_mIgG))

#get the number of samples with a raw read count equal to or greater than 10 at each peak location, by antibody/lysate
all$Aag2_Ago1_nhipeaks <- apply(all[Aag2Ago1b], 1, function(x) length(which(x>=10)))
all$Aag2_Ago2_nhipeaks <- apply(all[Aag2Ago2b], 1, function(x) length(which(x>=10)))
all$Aag2_rIgG_nhipeaks <- apply(all[Aag2rIgGb], 1, function(x) length(which(x>=10)))
all$Aag2_mIgG_nhipeaks <- apply(all[Aag2mIgGb], 1, function(x) length(which(x>=10)))
all$aegypti_Ago1_nhipeaks <- apply(all[aegyptiAgo1b], 1, function(x) length(which(x>=10)))
all$aegypti_Ago2_nhipeaks <- apply(all[aegyptiAgo2b], 1, function(x) length(which(x>=10)))
all$aegypti_rIgG_nhipeaks <- apply(all[aegyptirIgGb], 1, function(x) length(which(x>=10)))
all$aegypti_mIgG_nhipeaks <- apply(all[aegyptimIgGb], 1, function(x) length(which(x>=10)))

#get the number of samples with at least one read at each peak location, by antibody/lysate
all$aegypti_Ago1_BCsample <- apply(all[aegyptiAgo1b], 1, function(x) length(which(x>0)))
all$aegypti_Ago2_BCsample <- apply(all[aegyptiAgo2b], 1, function(x) length(which(x>0)))
all$aegypti_rIgG_BCsample <- apply(all[aegyptirIgGb], 1, function(x) length(which(x>0)))
all$aegypti_mIgG_BCsample <- apply(all[aegyptimIgGb], 1, function(x) length(which(x>0)))
all$Aag2_Ago1_BCsample <- apply(all[Aag2Ago1b], 1, function(x) length(which(x>0)))
all$Aag2_Ago2_BCsample <- apply(all[Aag2Ago2b], 1, function(x) length(which(x>0)))
all$Aag2_rIgG_BCsample <- apply(all[Aag2rIgGb], 1, function(x) length(which(x>0)))
all$Aag2_mIgG_BCsample <- apply(all[Aag2mIgGb], 1, function(x) length(which(x>0)))

#write.table(all, "/Users/kathryn/Reprocess_all_paper_datasets/Supp_Figs/Final_matrix_all_peaks_add_filtering.txt", col.names = TRUE, row.names = FALSE, quote = FALSE, sep = "\t")

output file is available in my Github

Test filtering conditions,Figure S3A-S3C

#check porportion of 3'UTRs for Ago1

f <- subset(all, all$aegyptiAgo1_peakBC > 0)
y <- subset(all, all$aegyptirIgG_peakBC > 0)
a <- subset(all, all$Aag2Ago1_peakBC > 0)
b <- subset(all, all$Aag2rIgG_peakBC > 0)
ls <- mget(c("f", "y", "a","b"), envir = globalenv())
ls <- lapply(ls, function(x) x <- x[,c("annotation")])
names(ls) <- c("aegyptiAgo1", "aegyptirIgG", "Aag2Ago1", "Aag2rIgG")

BC_UTRfun <- function(x) {
UTR3 <- length(which(x=="3' UTR"))
pUTR3 <- UTR3/(length(x))
print(pUTR3)
}

ann_mat <- vector("list", length(ls))
for(i in 1:length(ls)){
 ann_mat[i] <- BC_UTRfun(ls[[i]])
 ann_mat[[i]] <- as.data.frame(ann_mat[[i]])
 names(ann_mat[[i]]) <- "one_peak"
}

## [1] 0.1617916
## [1] 0.08659379
## [1] 0.2276189
## [1] 0.02848229

names(ann_mat) <- names(ls)


f <- subset(all, all$aegyptiAgo1_peakBC > 0 & all$aegypti_Ago1_over_rIgG == TRUE)
y <- subset(all, all$aegyptirIgG_peakBC > 0 & all$aegypti_Ago1_over_rIgG == FALSE)
a <- subset(all, all$Aag2Ago1_peakBC > 0 & all$Aag2_Ago1_over_rIgG == TRUE)
b <- subset(all, all$Aag2rIgG_peakBC > 0 & all$Aag2_Ago1_over_rIgG == FALSE)

ls <- mget(c("f", "y", "a","b"), envir = globalenv())
names(ls) <- c("aegypti_Ago1", "aegypti_rIgG", "Aag2_Ago1", "Aag2_rIgG")

temp <- vector("list", length(ls))
for(i in 1:length(ls)){
temp[[i]] <- ls[[i]][,c("annotation", c(paste0(names(ls[i]), "_nhipeaks")))]
}
names(temp) <- c("aegypti_Ago1", "aegypti_rIgG", "Aag2_Ago1", "Aag2_rIgG")

bb  <- vector("list", length(ls))
for(i in 1:length(ls)){
 bb[i] <- BC_UTRfun(ls[[i]]$annotation)
bb[[i]] <- as.data.frame(bb[[i]])
 names(bb[[i]]) <- "plus_over_IgG"
 ann_mat[[i]] <- bind_cols(ann_mat[[i]], bb[[i]])
}

## [1] 0.1579173
## [1] 0.08671852
## [1] 0.2571187
## [1] 0.02839879

BC_UTRfun_nhi <- function(x, nhi) {
x <- subset(x, x[,2] >= nhi)
UTR3 <- length(which(x$annotation=="3' UTR"))
pUTR3 <- UTR3/(nrow(x))
print(pUTR3)
}

bb  <- vector("list", length(temp))
for(i in 1:length(temp)){
 bb[i] <- BC_UTRfun_nhi(temp[[i]], 1)
bb[[i]] <- as.data.frame(bb[[i]])
 names(bb[[i]]) <- "plus_1nhi"
 ann_mat[[i]] <- bind_cols(ann_mat[[i]], bb[[i]])
}

## [1] 0.1554716
## [1] 0.03561767
## [1] 0.2971645
## [1] 0.02457703

bb  <- vector("list", length(temp))
for(i in 1:length(temp)){
 bb[i] <- BC_UTRfun_nhi(temp[[i]], 2)
bb[[i]] <- as.data.frame(bb[[i]])
 names(bb[[i]]) <- "plus_2nhi"
 ann_mat[[i]] <- bind_cols(ann_mat[[i]], bb[[i]])
}

## [1] 0.2339527
## [1] 0.008135593
## [1] 0.4175992
## [1] 0.009321595

ann_mat <- rbindlist(ann_mat, idcol = TRUE)
#write.table(ann_mat, "/Users/kathryn/Reprocess_all_paper_datasets/Supp_Figs/Ago1_3UTR_enrichment_filtering.txt", col.names = TRUE, row.names = FALSE, quote = FALSE, sep ="\t")

##3'UTR Ago2
f <- subset(all, all$aegyptiAgo2_peakBC > 0)
y <- subset(all, all$aegyptimIgG_peakBC > 0)
a <- subset(all, all$Aag2Ago2_peakBC > 0)
b <- subset(all, all$Aag2mIgG_peakBC > 0)
ls <- mget(c("f", "y", "a","b"), envir = globalenv())
ls <- lapply(ls, function(x) x <- x[,c("annotation")])
names(ls) <- c("aegypti_Ago2", "aegypti_mIgG", "Aag2_Ago2", "Aag2_mIgG")

ann_mat <- vector("list", length(ls))
for(i in 1:length(ls)){
 ann_mat[i] <- BC_UTRfun(ls[[i]])
 ann_mat[[i]] <- as.data.frame(ann_mat[[i]])
 names(ann_mat[[i]]) <- "one_peak"
}

## [1] 0.1673181
## [1] 0.03061224
## [1] 0.08509174
## [1] 0.09986301

names(ann_mat) <- names(ls)


f <- subset(all, all$aegyptiAgo2_peakBC > 0 & all$aegypti_Ago2_over_mIgG == TRUE)
y <- subset(all, all$aegyptimIgG_peakBC > 0 & all$aegypti_Ago2_over_mIgG == FALSE)
a <- subset(all, all$Aag2Ago2_peakBC > 0 & all$Aag2_Ago2_over_mIgG == TRUE)
b <- subset(all, all$Aag2mIgG_peakBC > 0 & all$Aag2_Ago2_over_mIgG == FALSE)

ls <- mget(c("f", "y", "a","b"), envir = globalenv())
names(ls) <- c("aegypti_Ago2", "aegypti_mIgG", "Aag2_Ago2", "Aag2_mIgG")

temp <- vector("list", length(ls))
for(i in 1:length(ls)){
temp[[i]] <- ls[[i]][,c("annotation", c(paste0(names(ls[i]), "_nhipeaks")))]
}
names(temp) <- c("aegypti_Ago2", "aegypti_mIgG", "Aag2_Ago2", "Aag2_mIgG")

bb  <- vector("list", length(ls))
for(i in 1:length(ls)){
 bb[i] <- BC_UTRfun(ls[[i]]$annotation)
bb[[i]] <- as.data.frame(bb[[i]])
 names(bb[[i]]) <- "plus_over_IgG"
 ann_mat[[i]] <- bind_cols(ann_mat[[i]], bb[[i]])
}

## [1] 0.271442
## [1] 0.02923977
## [1] 0.06371104
## [1] 0.10022

bb  <- vector("list", length(temp))
for(i in 1:length(temp)){
 bb[i] <- BC_UTRfun_nhi(temp[[i]], 1)
bb[[i]] <- as.data.frame(bb[[i]])
 names(bb[[i]]) <- "plus_1nhi"
 ann_mat[[i]] <- bind_cols(ann_mat[[i]], bb[[i]])
}

## [1] 0.3562775
## [1] 0.01410935
## [1] 0.05051195
## [1] 0.06243423

bb  <- vector("list", length(temp))
for(i in 1:length(temp)){
 bb[i] <- BC_UTRfun_nhi(temp[[i]], 2)
bb[[i]] <- as.data.frame(bb[[i]])
 names(bb[[i]]) <- "plus_2nhi"
 ann_mat[[i]] <- bind_cols(ann_mat[[i]], bb[[i]])
}

## [1] 0.3982558
## [1] 0.004932182
## [1] 0.04627072
## [1] 0.03746531

ann_mat <- rbindlist(ann_mat, idcol = TRUE)
#write.table(ann_mat, "/Users/kathryn/Reprocess_all_paper_datasets/Supp_Figs/Ago2_3UTR_enrichment_filtering.txt", col.names = TRUE, row.names = FALSE, quote = FALSE, sep ="\t")


##Distal Intergenic Ago2
f <- subset(all, all$aegyptiAgo2_peakBC > 0)
y <- subset(all, all$aegyptimIgG_peakBC > 0)
a <- subset(all, all$Aag2Ago2_peakBC > 0)
b <- subset(all, all$Aag2mIgG_peakBC > 0)
ls <- mget(c("f", "y", "a","b"), envir = globalenv())
ls <- lapply(ls, function(x) x <- x[,c("annotation")])
names(ls) <- c("aegypti_Ago2", "aegypti_mIgG", "Aag2_Ago2", "Aag2_mIgG")

BC_DIfun <- function(x) {
DI <- length(which(x=="Distal Intergenic"))
pDI <- DI/(length(x))
print(pDI)
}

ann_mat <- vector("list", length(ls))
for(i in 1:length(ls)){
 ann_mat[i] <- BC_DIfun(ls[[i]])
 ann_mat[[i]] <- as.data.frame(ann_mat[[i]])
 names(ann_mat[[i]]) <- "one_peak"
}

## [1] 0.1258268
## [1] 0.1895044
## [1] 0.2841055
## [1] 0.2020548

names(ann_mat) <- names(ls)


f <- subset(all, all$aegyptiAgo2_peakBC > 0 & all$aegypti_Ago2_over_mIgG == TRUE)
y <- subset(all, all$aegyptimIgG_peakBC > 0 & all$aegypti_Ago2_over_mIgG == FALSE)
a <- subset(all, all$Aag2Ago2_peakBC > 0 & all$Aag2_Ago2_over_mIgG == TRUE)
b <- subset(all, all$Aag2mIgG_peakBC > 0 & all$Aag2_Ago2_over_mIgG == FALSE)

ls <- mget(c("f", "y", "a","b"), envir = globalenv())
names(ls) <- c("aegypti_Ago2", "aegypti_mIgG", "Aag2_Ago2", "Aag2_mIgG")

temp <- vector("list", length(ls))
for(i in 1:length(ls)){
temp[[i]] <- ls[[i]][,c("annotation", c(paste0(names(ls[i]), "_nhipeaks")))]
}
names(temp) <- c("aegypti_Ago2", "aegypti_mIgG", "Aag2_Ago2", "Aag2_mIgG")

bb  <- vector("list", length(ls))
for(i in 1:length(ls)){
 bb[i] <- BC_DIfun(ls[[i]]$annotation)
bb[[i]] <- as.data.frame(bb[[i]])
 names(bb[[i]]) <- "plus_over_IgG"
 ann_mat[[i]] <- bind_cols(ann_mat[[i]], bb[[i]])
}

## [1] 0.1131008
## [1] 0.1900585
## [1] 0.3134478
## [1] 0.2016772

BC_DIfun_nhi <- function(x, nhi) {
x <- subset(x, x[,2] >= nhi)
DI <- length(which(x=="Distal Intergenic"))
pDI <- DI/(length(x))
print(pDI)
}

bb  <- vector("list", length(temp))
for(i in 1:length(temp)){
 bb[i] <- BC_UTRfun_nhi(temp[[i]], 1)
bb[[i]] <- as.data.frame(bb[[i]])
 names(bb[[i]]) <- "plus_1nhi"
 ann_mat[[i]] <- bind_cols(ann_mat[[i]], bb[[i]])
}

## [1] 0.3562775
## [1] 0.01410935
## [1] 0.05051195
## [1] 0.06243423

bb  <- vector("list", length(temp))
for(i in 1:length(temp)){
 bb[i] <- BC_DIfun_nhi(temp[[i]], 2)
bb[[i]] <- as.data.frame(bb[[i]])
 names(bb[[i]]) <- "plus_2nhi"
 ann_mat[[i]] <- bind_cols(ann_mat[[i]], bb[[i]])
}

## [1] 12.5
## [1] 41
## [1] 339.5
## [1] 139

ann_mat <- rbindlist(ann_mat, idcol = TRUE)
#write.table(ann_mat, "/Users/kathryn/Reprocess_all_paper_datasets/Supp_Figs/Ago2_distal_intergenic_enrichment_filtering.txt", col.names = TRUE, row.names = FALSE, quote = FALSE, sep ="\t")

#final filtering: peakBC > 0 and Ab is 10X above sample, nhi = 2 or more 
#Ago1 and Ago2 sets together for PCA:
Aag2 <- subset(all, all$Aag2Ago1_peakBC > 0 & all$Aag2_Ago1_nhipeaks > 1 & all$Aag2_Ago1_over_rIgG == "TRUE" | all$Aag2Ago2_peakBC > 0 & all$Aag2_Ago2_nhipeaks > 1 & all$Aag2_Ago2_over_mIgG == "TRUE")
row.names(Aag2) <- Aag2$peakID

aegypti <- subset(all, all$aegyptiAgo1_peakBC > 0 & all$aegypti_Ago1_nhipeaks > 1 & all$aegypti_Ago1_over_rIgG == "TRUE" | all$aegyptiAgo2_peakBC > 0 & all$aegypti_Ago2_nhipeaks > 1 & all$aegypti_Ago2_over_mIgG == "TRUE")
row.names(aegypti) <- aegypti$peakID

#Individual sets
Aag2_Ago1_filt <- subset(all, all$Aag2Ago1_peakBC > 0 & all$Aag2_Ago1_nhipeaks > 1 & all$Aag2_Ago1_over_rIgG == "TRUE")
#write.table(Aag2_Ago1_filt, "/Users/kathryn/Reprocess_all_paper_datasets/Supp_Figs/Final_cells_Ago1_matrix_filtered_peaks.txt", col.names = TRUE, row.names = FALSE, quote= FALSE, sp = "\t")
Aag2_Ago2_filt <- subset(all, all$Aag2Ago2_peakBC > 0 & all$Aag2_Ago2_nhipeaks > 1 & all$Aag2_Ago2_over_mIgG == "TRUE")
#write.table(Aag2_Ago2_filt, "/Users/kathryn/Reprocess_all_paper_datasets/Supp_Figs/Final_cells_Ago2_matrix_filtered_peaks.txt", col.names = TRUE, row.names = FALSE, quote= FALSE, sp = "\t")

aegypti_Ago1_filt <- subset(all, all$aegyptiAgo1_peakBC > 0 & all$aegypti_Ago1_nhipeaks > 1 & all$aegypti_Ago1_over_rIgG == "TRUE")
#write.table(aegypti_Ago1_filt , "/Users/kathryn/Reprocess_all_paper_datasets/Supp_Figs/Final_aegypti_Ago1_matrix_filtered_peaks.txt", col.names = TRUE, row.names = FALSE, quote= FALSE, sp = "\t")
aegypti_Ago2_filt <- subset(all, all$aegyptiAgo2_peakBC > 0 & all$aegypti_Ago2_nhipeaks > 1 & all$aegypti_Ago2_over_mIgG == "TRUE")
#write.table(aegypti_Ago2_filt , "/Users/kathryn/Reprocess_all_paper_datasets/Supp_Figs/Final_aegypti_Ago2_matrix_filtered_peaks.txt", col.names = TRUE, row.names = FALSE, quote= FALSE, sp = "\t")

output files are available in my Github

Cells PCA, Figure 4G

cell_samples <- subset(all_samples, all_samples$Lysate=="Aag2")
cell_samples$Lysate <- NULL

m_cells <- row.names(cell_samples)
#check that sample names match
m_cells %in% colnames(Aag2)

##  [1] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [15] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [29] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [43] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE

Aag2x <- Aag2[m_cells] 

dds_Aag2 <- DESeqDataSetFromMatrix(countData = Aag2x, colData = cell_samples, design = ~ Experiment + Antibody) 

dds_Aag2 <- estimateSizeFactors(dds_Aag2,type="poscounts")

Aag2_rld <- varianceStabilizingTransformation(dds_Aag2)

b <-  plotPCA(Aag2_rld,intgroup=c("Experiment", "Antibody"), ntop=1E6, returnData=TRUE)

#reorder levels so can set colors 
b$Antibody <- factor(b$Antibody, levels = c("Ago1","rIgG",  "Ago2", "mIgG"))
#set PC2 to be consistent with all unfiltered PCA
b$PC2 <- (b$PC2)*-1
#calculate variation as a rounded percent
percentVar <- round(100 * attr(b, "percentVar")) 
 
ggplot(b, aes(x = PC1, y = PC2, color = Antibody, label=name)) + 
geom_point(size =3) + 
scale_color_manual(values =c("#1B0B80", "#64C3DB", "#8A0F09", "#F87F11"), name="Antibody") +
xlab(paste0("PC1: ", percentVar[1], "% variance")) + 
ylab(paste0("PC2: ", percentVar[2], "% variance")) + theme_bw()

aegypti PCA, Figure 4J

aegypti_samples <- subset(all_samples, all_samples$Lysate=="aegypti")
aegypti_samples$Lysate <- NULL

#have 2 IgG samples with all zeros - need to drop or will give an error in the PCA
drop <- c("KRG092419_aegypti_mIgG_Exp7A", "KRG092419_aegypti_mIgG_Exp7B")
aegypti_samples <- aegypti_samples[!rownames(aegypti_samples) %in% drop, ]
m_aegypti <- row.names(aegypti_samples)

#check sample names match
m_aegypti %in% colnames(aegypti)

##  [1] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [15] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE
## [29] TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE TRUE

aegypti_x <- aegypti[m_aegypti]

dds_aegypti <- DESeqDataSetFromMatrix(countData = aegypti_x, colData = aegypti_samples, design = ~ Experiment + Antibody) #

## factor levels were dropped which had no samples

dds_aegypti  <- estimateSizeFactors(dds_aegypti, type="poscounts")

rld_aegypti <- varianceStabilizingTransformation(dds_aegypti)

d <-  plotPCA(rld_aegypti ,intgroup=c("Experiment", "Antibody"), ntop=10^6, returnData=TRUE)

#reorder levels so can set colors 
d$Antibody <- factor(d$Antibody, levels = c("Ago1","rIgG",  "Ago2", "mIgG"))
#set PC2 to be consistent with all unfiltered PCA
d$PC2 <- (d$PC2)*-1
#calculate variation as a rounded percent
percentVar <- round(100 * attr(d, "percentVar")) 


ggplot(d, aes(x = PC1, y = PC2, color = Antibody, label=name)) + 
geom_point(size =3) + 
scale_color_manual(values =c("#3360A9", "#D2E1E5", "#FA0F0C", "#F4DBC7"), name="Antibody") +
xlab(paste0("PC1: ", percentVar[1], "% variance")) + 
ylab(paste0("PC2: ", percentVar[2], "% variance")) + theme_bw()

fgsea of targeted genes/pathways that drive Ago1 and Ago seperation by PCA; Figures 4H, 4I, 4K, 4L and Table S6

AaegL5 LVP_AGWG genome fasta and gtf is available for download at Vectorbase

gtffile <- "/Users/kathryn/Aedes-aegypti-LVP_AGWG_BASEFEATURES_AaegL5.2.gtf"

TxDb <- makeTxDbFromGFF(gtffile)

## Import genomic features from the file as a GRanges object ... OK
## Prepare the 'metadata' data frame ... OK
## Make the TxDb object ...

## Warning in .get_cds_IDX(type, phase): The "phase" metadata column contains non-NA values for features of
##   type stop_codon. This information was ignored.

## OK

test <- exonsBy(TxDb, use.names = TRUE)

#simplified names of chromosomes to match TxDB or gives and error
AaegL5 <- readDNAStringSet("/Users/kathryn/mirdeep2_master/Aedes-aegypti-LVP_AGWG_CHROMOSOMES_AaegL5_fixed.fa", format = "fasta", nrec=-1L)
tx <- AaegL5[test]

#writeXStringSet(tx, "/Users/kathryn/Reprocess_all_paper_datasets/alltranscripts.fa", format = "fasta")

output file “alltranscripts.fa.zip” is available in my Github
This fasta of all transcript sequences was uploaded to eggNOG-mapper v2 to map geneIDs to annotations and GO terms
“job_MM_e0ep_7ci_annotations.tsv” annotation tsv is available in my Github

tsv <- read.delim("/Users/kathryn/Reprocess_all_paper_datasets/job_MM_e0ep_7ci_annotations.tsv", header = FALSE, sep ="\t",comment.char = "",skip = 4)
tsvv <- tsv %>% dplyr::select(V1,V7) %>% dplyr::mutate(Gene=gsub("-..","",V1)) %>% dplyr::select(-V1)
tsvvGOs <- as.vector(tsvv$V7)
names(tsvvGOs) <- paste0(tsvv$Gene,"_")

temp <- strsplit(tsvvGOs,",") %>% unlist 
newFrame <- data.frame(ID=gsub("_.*","",names(temp)),GO=unname(temp))
temp <- newFrame %>% group_by(GO) %>% dplyr::mutate(newGO=paste(ID,sep=",",collapse=";"))

gt <- lapply(unique(newFrame$GO),function(x)unique(as.vector(newFrame[newFrame$GO %in% x,"ID"])))
names(gt) <- unique(newFrame$GO)

#get PCA loadings for PC2 by peak for Aag2
myRotation <- prcomp(t(assay(Aag2_rld)))$rotation
nflkflerf <- GRanges(gsub("_","-",rownames(myRotation)))
mcols(nflkflerf) <- data.frame(Names=rownames(myRotation),myRotation)
Aag2_noNA <- Aag2[!is.na(Aag2$annotation),]
mergeAag2 <- merge(Aag2_noNA, nflkflerf, by.x="peakID", by.y="Names", all.x = TRUE)
mergeAag2$PC2 <- (mergeAag2$PC2)*-1
eff <- mergeAag2[order(abs(mergeAag2$PC2),decreasing = TRUE),]
eff <- eff[match(unique(eff$geneId),eff$geneId),]
#write.table(eff,"/Users/kathryn/Reprocess_all_paper_datasets/GO_analysis/Aag2_merged_PC2_selected_peaks_unique_genes.txt",quote = FALSE, sep = "\t", col.names = TRUE ) #table available upon request
myStats <- eff$PC2
names(myStats) <- eff$geneId
fef <- fgsea(pathways = gt,
             stats=myStats,nperm = 1000)

ewfwe <- lapply(as.list(GOTERM),Term) %>% unlist 
dvsvs <- data.frame(names(ewfwe),unname(ewfwe))
colnames(dvsvs) <- c("pathway","Term")

sdvcAag2 <- merge(fef,dvsvs,by="pathway",all.x=TRUE) %>% arrange(pval)
sdvcAag2$leadingEdge <- unlist(lapply(sdvcAag2$leadingEdge,function(x)paste0(x, collapse=":")))
sdvcAag2 <- sdvcAag2[order(sdvcAag2$NES,decreasing = TRUE),]
#have many pathways with exactly the same leading edge genes - for these, all p-values, NES, and sizes are exactly the same, so collapse

testAag2 <- sdvcAag2 %>% dplyr::group_by(leadingEdge) %>% dplyr::top_n(1, NES) %>% dplyr::summarise(Term = paste0(Term, collapse=","),pval=dplyr::first(pval),size= dplyr::first(size), NES =dplyr::first(NES)) #this is Supplementary Table 6, cells

#get PCA loadings for PC2 by peak for aegypti
myRotation <- prcomp(t(assay(rld_aegypti)))$rotation
aegypti_noNA <- aegypti[!is.na(aegypti$annotation),]
mergeaegypti <- merge(aegypti_noNA, nflkflerf, by.x="peakID", by.y="Names", all.x = TRUE)
mergeaegypti$PC2 <- (mergeaegypti$PC2)*-1
eff <- mergeaegypti[order(abs(mergeaegypti$PC2),decreasing = TRUE),] 
eff <- eff[match(unique(eff$geneId),eff$geneId),]

#write.table(eff,"/Users/kathryn/Reprocess_all_paper_datasets/GO_analysis/aegypti_merged_PC2_selected_peaks_unique_genes.txt",quote = FALSE, sep = "\t", col.names = TRUE ) # table available upon request
myStats <- eff$PC2
names(myStats) <- eff$geneId
fef <- fgsea(pathways = gt,
             stats=myStats,nperm = 1000)

## Warning in fgsea(pathways = gt, stats = myStats, nperm = 1000): There are ties in the preranked stats (94.14% of the list).
## The order of those tied genes will be arbitrary, which may produce unexpected results.

sdvcaegypti <- merge(fef,dvsvs,by="pathway",all.x=TRUE) %>% arrange(pval)
sdvcaegypti$leadingEdge <- unlist(lapply(sdvcaegypti$leadingEdge,function(x)paste0(x, collapse=":")))
sdvcaegypti <- sdvcaegypti[order(sdvcaegypti$NES,decreasing = TRUE),]
#have many pathways with exactly the same leading edge genes - for these, all p-values, NES, and sizes are exactly the same, so collapse

testaegypti <- sdvcaegypti %>% group_by(leadingEdge) %>% top_n(1, NES) %>% dplyr::summarise(Term = paste0(Term, collapse=","),pval=dplyr::first(pval),size=dplyr::first(size), NES =dplyr::first(NES)) #this is Supplementary Table 6,  aegypti

Make annotation pie charts on final filtered peaks, Figures 4C-4F

aegypti_Ago2GR <- makeGRangesFromDataFrame(aegypti_Ago2_filt,
                                     keep.extra.columns=FALSE,
                                     ignore.strand=FALSE,
                                     seqinfo=NULL,
                                     seqnames.field="seqnames",
                                     start.field="start",
                                     end.field="end",
                                     strand.field="strand",
                                     starts.in.df.are.0based=FALSE)

aegypti_Ago2anno <- annotatePeak(aegypti_Ago2GR,
                              TxDb=TxDb,
                              sameStrand=FALSE,
                              genomicAnnotationPriority = c("3UTR", "5UTR", "Exon",
                                                            "Intron", "Promoter", "Downstream", "Intergenic"),
                              overlap = "all")

## >> preparing features information...      2021-03-16 17:15:09 
## >> identifying nearest features...        2021-03-16 17:15:09

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## >> calculating distance from peak to TSS...   2021-03-16 17:15:09 
## >> assigning genomic annotation...        2021-03-16 17:15:09

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## >> assigning chromosome lengths           2021-03-16 17:15:13 
## >> done...                    2021-03-16 17:15:13

plotAnnoPie(aegypti_Ago2anno)

aegypti_Ago1GR <- makeGRangesFromDataFrame(aegypti_Ago1_filt,
                                           keep.extra.columns=FALSE,
                                           ignore.strand=FALSE,
                                           seqinfo=NULL,
                                           seqnames.field="seqnames",
                                     start.field="start",
                                     end.field="end",
                                     strand.field="strand",
                                           starts.in.df.are.0based=FALSE)

aegypti_Ago1GRanno <- annotatePeak(aegypti_Ago1GR,
                                 TxDb=TxDb,
                                 sameStrand=FALSE,
                                 genomicAnnotationPriority = c("3UTR", "5UTR", "Exon",
                                                               "Intron", "Promoter", "Downstream", "Intergenic"),
                                 overlap = "all")

## >> preparing features information...      2021-03-16 17:15:13 
## >> identifying nearest features...        2021-03-16 17:15:13

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## >> calculating distance from peak to TSS...   2021-03-16 17:15:14 
## >> assigning genomic annotation...        2021-03-16 17:15:14

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## >> assigning chromosome lengths           2021-03-16 17:15:14 
## >> done...                    2021-03-16 17:15:14

plotAnnoPie(aegypti_Ago1GRanno)

cells_Ago1GR <- makeGRangesFromDataFrame(Aag2_Ago1_filt,
                                           keep.extra.columns=FALSE,
                                           ignore.strand=FALSE,
                                           seqinfo=NULL,
                                           seqnames.field="seqnames",
                                     start.field="start",
                                     end.field="end",
                                     strand.field="strand",
                                           starts.in.df.are.0based=FALSE)

cells_Ago1anno <- annotatePeak(cells_Ago1GR,
                                 TxDb=TxDb,
                                 sameStrand=FALSE,
                                 genomicAnnotationPriority = c("3UTR", "5UTR", "Exon",
                                                               "Intron", "Promoter", "Downstream", "Intergenic"),
                                 overlap = "all")

## >> preparing features information...      2021-03-16 17:15:15 
## >> identifying nearest features...        2021-03-16 17:15:15

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## >> calculating distance from peak to TSS...   2021-03-16 17:15:15 
## >> assigning genomic annotation...        2021-03-16 17:15:15

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## >> assigning chromosome lengths           2021-03-16 17:15:15 
## >> done...                    2021-03-16 17:15:15

plotAnnoPie(cells_Ago1anno)

cells_Ago2GR <- makeGRangesFromDataFrame(Aag2_Ago2_filt,
                                           keep.extra.columns=FALSE,
                                           ignore.strand=FALSE,
                                           seqinfo=NULL,
                                           seqnames.field="seqnames",
                                     start.field="start",
                                     end.field="end",
                                     strand.field="strand",
                                           starts.in.df.are.0based=FALSE)

cells_Ago2anno <- annotatePeak(cells_Ago2GR,
                                 TxDb=TxDb,
                                 sameStrand=FALSE,
                                 genomicAnnotationPriority = c("3UTR", "5UTR", "Exon",
                                                               "Intron", "Promoter", "Downstream", "Intergenic"),
                                 overlap = "all")

## >> preparing features information...      2021-03-16 17:15:16 
## >> identifying nearest features...        2021-03-16 17:15:16

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## >> calculating distance from peak to TSS...   2021-03-16 17:15:16 
## >> assigning genomic annotation...        2021-03-16 17:15:16

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## Warning in .Seqinfo.mergexy(x, y): Each of the 2 combined objects has sequence levels not in the other:
##   - in 'x': NIGP01000004, NIGP01000008, NIGP01000012, NIGP01000013, NIGP01000016, NIGP01000018, NIGP01000020, NIGP01000024, NIGP01000030, NIGP01000041, NIGP01000042, NIGP01000045, NIGP01000058, NIGP01000060, NIGP01000061, NIGP01000066, NIGP01000068, NIGP01000078, NIGP01000081, NIGP01000082, NIGP01000086, NIGP01000092, NIGP01000098, NIGP01000108, NIGP01000112, NIGP01000113, NIGP01000119, NIGP01000126, NIGP01000127, NIGP01000128, NIGP01000135, NIGP01000150, NIGP01000152, NIGP01000157, NIGP01000161, NIGP01000162, NIGP01000165, NIGP01000168, NIGP01000169, NIGP01000170, NIGP01000174, NIGP01000176, NIGP01000181, NIGP01000182, NIGP01000211, NIGP01000217, NIGP01000226, NIGP01000227, NIGP01000233, NIGP01000234, NIGP01000249, NIGP01000251, NIGP01000258, NIGP01000266, NIGP01000274, NIGP01000282, NIGP01000283, NIGP01000285, NIGP01000293, NIGP01000299, NIGP01000300, NIGP01000305, NIGP01000313, NIGP01000316, NIGP01000317, NIGP01000326, NIGP01000328, NIGP01000332, NIGP01000333, NIGP01000335, NIGP01000340, NIGP01000341, NIGP01000354, NIGP01000355, NIGP01000358, NIGP01000373, NIGP01000378, NIGP01000382, NIGP01000401, NIGP01000402, NIGP01000404, NIGP01000408, NIGP01000409, NIGP01000411, NIGP01000414, NIGP01000416, NIGP01000423, NIGP01000427, NIGP01000438, NIGP01000439, NIGP01000456, NIGP01000457, NIGP01000471, NIGP01000472, NIGP01000473, NIGP01000477, NIGP01000478, NIGP01000480, NIGP01000484, NIGP01000487, NIGP01000505, NIGP01000508, NIGP01000512, NIGP01000513, NIGP01000526, NIGP01000547, NIGP01000550, NIGP01000554, NIGP01000562, NIGP01000563, NIGP01000564, NIGP01000565, NIGP01000572, NIGP01000575, NIGP01000581, NIGP01000582, NIGP01000584, NIGP01000588, NIGP01000597, NIGP01000603, NIGP01000609, NIGP01000613, NIGP01000614, NIGP01000618, NIGP01000623, NIGP01000628, NIGP01000629, NIGP01000636, NIGP01000638, NIGP01000645, NIGP01000647, NIGP01000656, NIGP01000661, NIGP01000664, NIGP01000670, NIGP01000680, NIGP01000683, NIGP01000694, NIGP01000700, NIGP01000720, NIGP01000723, NIGP01000726, NIGP01000731, NIGP01000735, NIGP01000739, NIGP01000743, NIGP01000750, NIGP01000759, NIGP01000764, NIGP01000768, NIGP01000770, NIGP01000772, NIGP01000774, NIGP01000789, NIGP01000790, NIGP01000792, NIGP01000794, NIGP01000796, NIGP01000797, NIGP01000824, NIGP01000825, NIGP01000829, NIGP01000831, NIGP01000836, NIGP01000839, NIGP01000842, NIGP01000845, NIGP01000855, NIGP01000864, NIGP01000865, NIGP01000866, NIGP01000871, NIGP01000877, NIGP01000878, NIGP01000880, NIGP01000886, NIGP01000887, NIGP01000888, NIGP01000893, NIGP01000894, NIGP01000907, NIGP01000909, NIGP01000912, NIGP01000917, NIGP01000928, NIGP01000933, NIGP01000943, NIGP01000946, NIGP01000950, NIGP01000953, NIGP01000955, NIGP01000963, NIGP01000965, NIGP01000967, NIGP01000970, NIGP01000971, NIGP01000972, NIGP01000979, NIGP01000981, NIGP01000982, NIGP01000993, NIGP01000997, NIGP01001000, NIGP01001002, NIGP01001004, NIGP01001005, NIGP01001011, NIGP01001012, NIGP01001016, NIGP01001019, NIGP01001020, NIGP01001021, NIGP01001025, NIGP01001026, NIGP01001029, NIGP01001030, NIGP01001036, NIGP01001045, NIGP01001052, NIGP01001056, NIGP01001064, NIGP01001066, NIGP01001069, NIGP01001073, NIGP01001076, NIGP01001077, NIGP01001078, NIGP01001084, NIGP01001087, NIGP01001088, NIGP01001093, NIGP01001101, NIGP01001104, NIGP01001105, NIGP01001106, NIGP01001120, NIGP01001132, NIGP01001134, NIGP01001138, NIGP01001139, NIGP01001146, NIGP01001148, NIGP01001149, NIGP01001150, NIGP01001159, NIGP01001161, NIGP01001164, NIGP01001168, NIGP01001169, NIGP01001181, NIGP01001193, NIGP01001198, NIGP01001202, NIGP01001206, NIGP01001209, NIGP01001210, NIGP01001217, NIGP01001220, NIGP01001223, NIGP01001226, NIGP01001232, NIGP01001235, NIGP01001250, NIGP01001253, NIGP01001257, NIGP01001259, NIGP01001267, NIGP01001268, NIGP01001270, NIGP01001273, NIGP01001275, NIGP01001278, NIGP01001280, NIGP01001281, NIGP01001288, NIGP01001289, NIGP01001292, NIGP01001302, NIGP01001306, NIGP01001312, NIGP01001313, NIGP01001315, NIGP01001328, NIGP01001330, NIGP01001336, NIGP01001338, NIGP01001349, NIGP01001351, NIGP01001354, NIGP01001361, NIGP01001366, NIGP01001367, NIGP01001369, NIGP01001370, NIGP01001376, NIGP01001381, NIGP01001383, NIGP01001389, NIGP01001394, NIGP01001401, NIGP01001404, NIGP01001413, NIGP01001421, NIGP01001427, NIGP01001429, NIGP01001430, NIGP01001432, NIGP01001435, NIGP01001436, NIGP01001437, NIGP01001439, NIGP01001444, NIGP01001446, NIGP01001457, NIGP01001461, NIGP01001462, NIGP01001466, NIGP01001467, NIGP01001471, NIGP01001472, NIGP01001492, NIGP01001498, NIGP01001500, NIGP01001503, NIGP01001508, NIGP01001510, NIGP01001511, NIGP01001513, NIGP01001517, NIGP01001518, NIGP01001521, NIGP01001523, NIGP01001526, NIGP01001527, NIGP01001533, NIGP01001538, NIGP01001543, NIGP01001552, NIGP01001554, NIGP01001556, NIGP01001558, NIGP01001560, NIGP01001561, NIGP01001563, NIGP01001564, NIGP01001566, NIGP01001567, NIGP01001571, NIGP01001579, NIGP01001581, NIGP01001583, NIGP01001588, NIGP01001592, NIGP01001601, NIGP01001604, NIGP01001606, NIGP01001610, NIGP01001611, NIGP01001616, NIGP01001620, NIGP01001625, NIGP01001627, NIGP01001628, NIGP01001629, NIGP01001633, NIGP01001634, NIGP01001637, NIGP01001642, NIGP01001651, NIGP01001652, NIGP01001658, NIGP01001659, NIGP01001660, NIGP01001664, NIGP01001665, NIGP01001666, NIGP01001669, NIGP01001673, NIGP01001680, NIGP01001683, NIGP01001691, NIGP01001693, NIGP01001697, NIGP01001698, NIGP01001707, NIGP01001710, NIGP01001714, NIGP01001716, NIGP01001722, NIGP01001724, NIGP01001734, NIGP01001735, NIGP01001737, NIGP01001739, NIGP01001740, NIGP01001741, NIGP01001747, NIGP01001748, NIGP01001751, NIGP01001759, NIGP01001760, NIGP01001763, NIGP01001772, NIGP01001773, NIGP01001775, NIGP01001776, NIGP01001779, NIGP01001782, NIGP01001787, NIGP01001791, NIGP01001793, NIGP01001795, NIGP01001802, NIGP01001803, NIGP01001804, NIGP01001814, NIGP01001826, NIGP01001827, NIGP01001829, NIGP01001836, NIGP01001845, NIGP01001852, NIGP01001854, NIGP01001857, NIGP01001862, NIGP01001865, NIGP01001866, NIGP01001867, NIGP01001873, NIGP01001900, NIGP01001905, NIGP01001923, NIGP01001935, NIGP01001937, NIGP01001938, NIGP01001945, NIGP01001946, NIGP01001949, NIGP01001965, NIGP01001967, NIGP01001969, NIGP01001982, NIGP01001984, NIGP01001990, NIGP01001993, NIGP01001997, NIGP01002005, NIGP01002006, NIGP01002009, NIGP01002011, NIGP01002012, NIGP01002013, NIGP01002014, NIGP01002021, NIGP01002025, NIGP01002027, NIGP01002030, NIGP01002033, NIGP01002043, NIGP01002052, NIGP01002057, NIGP01002061, NIGP01002067, NIGP01002069, NIGP01002071, NIGP01002073, NIGP01002089, NIGP01002090, NIGP01002093, NIGP01002094, NIGP01002099, NIGP01002101, NIGP01002113, NIGP01002120, NIGP01002130, NIGP01002135, NIGP01002137, NIGP01002140, NIGP01002141, NIGP01002144, NIGP01002146, NIGP01002157, NIGP01002158, NIGP01002167, NIGP01002168, NIGP01002170, NIGP01002172, NIGP01002175, NIGP01002179, NIGP01002182, NIGP01002188, NIGP01002199, NIGP01002200, NIGP01002207, NIGP01002208, NIGP01002233, NIGP01002234, NIGP01002243, NIGP01002244, NIGP01002252, NIGP01002255, NIGP01002257, NIGP01002265, NIGP01002275, NIGP01002278, NIGP01002280, NIGP01002284, NIGP01002287, NIGP01002297, NIGP01002307
##   - in 'y': NIGP01000009, NIGP01000033, NIGP01000049, NIGP01000055, NIGP01000062, NIGP01000073, NIGP01000079, NIGP01000104, NIGP01000107, NIGP01000115, NIGP01000123, NIGP01000137, NIGP01000156, NIGP01000183, NIGP01000186, NIGP01000197, NIGP01000200, NIGP01000213, NIGP01000220, NIGP01000222, NIGP01000236, NIGP01000238, NIGP01000244, NIGP01000248, NIGP01000263, NIGP01000265, NIGP01000267, NIGP01000270, NIGP01000281, NIGP01000288, NIGP01000290, NIGP01000292, NIGP01000294, NIGP01000297, NIGP01000310, NIGP01000324, NIGP01000325, NIGP01000329, NIGP01000330, NIGP01000357, NIGP01000363, NIGP01000365, NIGP01000375, NIGP01000377, NIGP01000383, NIGP01000386, NIGP01000396, NIGP01000398, NIGP01000410, NIGP01000412, NIGP01000417, NIGP01000421, NIGP01000424, NIGP01000434, NIGP01000461, NIGP01000463, NIGP01000466, NIGP01000497, NIGP01000519, NIGP01000535, NIGP01000536, NIGP01000541, NIGP01000557, NIGP01000560, NIGP01000566, NIGP01000569, NIGP01000570, NIGP01000571, NIGP01

## >> assigning chromosome lengths           2021-03-16 17:15:16 
## >> done...                    2021-03-16 17:15:16

plotAnnoPie(cells_Ago2anno)

Now do Venn Diagrams to compare genes in different filtered ab/lysate combinations, Figure S3E

#make list of unique genes in filtered 
AA1 <- unique(subset(all$geneId, all$peakID %in% Aag2_Ago1_filt$peakID))
#remove NA, because not all peaks could be annotated to a gene
AA1 <- AA1[!is.na( AA1)]
AA2 <- unique(subset(all$geneId, all$peakID %in% Aag2_Ago2_filt$peakID))
AA2 <- AA2[!is.na( AA2)]
AeA1 <- unique(subset(all$geneId, all$peakID %in% aegypti_Ago1_filt$peakID))
AeA1 <- AeA1[!is.na( AeA1)]
AeA2 <- unique(subset(all$geneId, all$peakID %in% aegypti_Ago2_filt$peakID))
AeA2 <- AeA2[!is.na(AeA2)]
filt <- list(Aag2Ago1 = AA1, Aag2Ago2 = AA2, aegyptiAgo1 = AeA1, aegyptiAgo2 = AeA2)

plot(venn(filt))

Venn Diagram to compare genes found in Zhang et al. and my aegypti AGO1 genes, Figure S3H

input file is Dataset S03 from Zhang et al., 2017, and is also available in my Github

Zhang <- read.delim("/Users/kathryn/Reprocess_all_paper_datasets/Zhang_peaks.txt", header = TRUE, sep = "\t") 
reps <- grep("rep", colnames(Zhang), value = TRUE)
Zhang$all_counts <- rowSums(Zhang[reps])
#use their filtering criteria, at least one read/sample 
Zhangfilt <-as.character(unique(subset(Zhang$annotation.ID, Zhang$all_counts > 6)))
Zhangfilt <- Zhangfilt[!is.na(Zhangfilt)]
AeA1 <- unique(subset(all$geneId, all$aegyptiAgo1_counts > 8))
AeA1 <- AeA1[!is.na( AeA1)]
compare <- list(aegyptiAgo1 = AeA1, Zhang = Zhangfilt)
plot(venn(compare))