Adding the cytogenetic to genes is convenient because it provides a somewhat memorable names for the genomic region where the gene is located. Biomart package in bioconductor has the database and function for the annnotation.
suppressMessages(library(tidyverse))
suppressMessages(library(glue))
suppressMessages(library(RSQLite))add cytogenetic band to genes
# install biomaRt if not installed
# if (!requireNamespace("BiocManager", quietly = TRUE))
# install.packages("BiocManager")
# BiocManager::install("biomaRt")
## YOU MAY WANT TO RESTART R/RSTUDIO AFTER INSTAALLING BIOCMANAGER
ensembl <- biomaRt::useMart(biomart="ENSEMBL_MART_ENSEMBL",dataset="hsapiens_gene_ensembl")
## the default build is hg38
biomaRt::searchDatasets(mart = ensembl, pattern = "hsapiens")## dataset description version
## 80 hsapiens_gene_ensembl Human genes (GRCh38.p13) GRCh38.p13# dataset description version
#80 hsapiens_gene_ensembl Human genes (GRCh38.p13) GRCh38.p13
## To use hg19/grch37 use
## biomaRt::listEnsemblArchives()
## name date url version current_release
## 1 Ensembl GRCh37 Feb 2014 https://grch37.ensembl.org GRCh37
## 2 Ensembl 104 May 2021 https://may2021.archive.ensembl.org 104 *
ensembl37 <- biomaRt::useEnsembl(biomart = 'genes',
dataset = 'hsapiens_gene_ensembl',
version = 'GRCh37')
## get the gene annotation with cytoband from biomart
anno_gene <- biomaRt::getBM(attributes =c("ensembl_gene_id","external_gene_name","chromosome_name","start_position","end_position","band", "gene_biotype"),mart=ensembl)
## define function to add cytoband to gene
addband2gene = function(df,geneid = "ensembl_gene_id")
{
if(!exists("anno_gene"))
{
ensembl <- biomaRt::useMart(biomart="ENSEMBL_MART_ENSEMBL",dataset="hsapiens_gene_ensembl")
anno_gene <<- biomaRt::getBM(attributes = c("ensembl_gene_id","external_gene_name","chromosome_name","start_position","end_position","band", "gene_biotype"),mart=ensembl )
print("defined anno_gene")
}
if(geneid != "ensembl_gene_id") names(df)[names(df)==geneid] = "ensembl_gene_id" ## this is an ugly workaround - need to find a way to use rename_ for this but don't know how to specify a string instead of name in rename(geneid = "ensembl_gene_id")
df = df %>% left_join(anno_gene, by=c( "ensembl_gene_id" ))
if(geneid != "ensembl_gene_id") names(df)[names(df)=="ensembl_gene_id"] = geneid
df %>% mutate(cytoband = paste0(chromosome_name,band))
}
anno_gene <- anno_gene %>% mutate(cytoband = paste0(chromosome_name,band))To get start and end of the cytegenetic bands
## Download cytoband table from http://genome.ucsc.edu/cgi-bin/hgTables
## 1. Go to the UCSC Genome browser: https://genome.ucsc.edu/index.html
## 2. Mouse over "Tools" and select "Table Browser"
## 3. In the table browser window, set the following parameters: clade = mammal, genome = human, assembly = hg38 (or other), group = Mapping and Sequencing, track = Chromosome Band, table = cytoBand, position = chr1 (or whatever chromosome you are interested in), output format = all fields from selected table, file type returned = plain text
## 4. Click [get output]
## The results will show the following 5 columns: chromosome number, cytoband start position, end position, cytoband name, and staining result.
## Haynes, Karmella. (2018). Re: How can i gen the length in mb from a cytoband?. Retrieved from: https://www.researchgate.net/post/How-can-i-gen-the-length-in-mb-from-a-cytoband/5b2147a0565fba5e2820b3de/citation/download.
#
WEBDATA="/Users/haekyungim/Box/LargeFiles/imlab-data/data-Github/web-data"
cytoband_hg38 <- read_table(glue("{WEBDATA}/2021-07-28-how-to-get-the-cytogenetic-band-of-a-gene/hgTables-cytoband-positions-hg38.txt"),comment = "#",guess_max = 10000)##
## ── Column specification ────────────────────────────────────────────────────────
## cols(
## chrom = col_character(),
## chromStart = col_double(),
## chromEnd = col_double(),
## name = col_character(),
## gieStain = col_character()
## )## Warning: 571 parsing failures.
## row col expected actual file
## 455 -- 5 columns 4 columns '/Users/haekyungim/Box/LargeFiles/imlab-data/data-Github/web-data/2021-07-28-how-to-get-the-cytogenetic-band-of-a-gene/hgTables-cytoband-positions-hg38.txt'
## 864 -- 5 columns 4 columns '/Users/haekyungim/Box/LargeFiles/imlab-data/data-Github/web-data/2021-07-28-how-to-get-the-cytogenetic-band-of-a-gene/hgTables-cytoband-positions-hg38.txt'
## 865 -- 5 columns 4 columns '/Users/haekyungim/Box/LargeFiles/imlab-data/data-Github/web-data/2021-07-28-how-to-get-the-cytogenetic-band-of-a-gene/hgTables-cytoband-positions-hg38.txt'
## 866 -- 5 columns 4 columns '/Users/haekyungim/Box/LargeFiles/imlab-data/data-Github/web-data/2021-07-28-how-to-get-the-cytogenetic-band-of-a-gene/hgTables-cytoband-positions-hg38.txt'
## 867 -- 5 columns 4 columns '/Users/haekyungim/Box/LargeFiles/imlab-data/data-Github/web-data/2021-07-28-how-to-get-the-cytogenetic-band-of-a-gene/hgTables-cytoband-positions-hg38.txt'
## ... ... ......... ......... ............................................................................................................................................................
## See problems(...) for more details.#
cytoband_hg37 <- read_table(glue("{WEBDATA}/2021-07-28-how-to-get-the-cytogenetic-band-of-a-gene/hgTables-cytoband-positions-hg37.txt"),comment = "#",guess_max = 10000)##
## ── Column specification ────────────────────────────────────────────────────────
## cols(
## chrom = col_character(),
## chromStart = col_double(),
## chromEnd = col_double(),
## name = col_character(),
## gieStain = col_character()
## )# What's the distribution of the weights
cytoband_hg38 %>% filter(chrom %in% paste0("chr",c(1:22)) )%>% mutate(bandw = chromEnd - chromStart) %>% .[["bandw"]] %>% summary()/1e6## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.100 2.000 3.200 3.545 4.600 18.100 # Min. 1st Qu. Median Mean 3rd Qu. Max.
# 0.100 2.000 3.200 3.545 4.600 18.100
cytoband_hg37 %>% filter(chrom %in% paste0("chr",1:2) ) %>% mutate(bandw = chromEnd - chromStart) %>% .[["bandw"]] %>% summary()/1e6## Min. 1st Qu. Median Mean 3rd Qu. Max.
## 0.50 2.40 3.60 3.94 4.90 15.20 # Min. 1st Qu. Median Mean 3rd Qu. Max.
# 0.100 2.100 3.300 3.552 4.600 15.200
cytoband_hg37 %>% mutate(bandw = chromEnd - chromStart) %>% ggplot(aes(bandw,fill=chrom)) + geom_density(alpha=0.5)
# How many cytogenetic bands are there in the autosomes (non sex chromosomes nor mitochondria)
dim(cytoband_hg38)## [1] 1433 5dim(cytoband_hg37)## [1] 862 5## there are many more cytobands in hg38 because there are many patches added after the official release of hg19## number of genes per cytoband
anno_gene %>% count(cytoband) %>% arrange(desc(n))## cytoband n
## 1 16p13.3 421
## 2 14q11.2 419
## 3 16p11.2 419
## 4 19p13.3 381
## 5 11p15.4 368
## 6 17p11.2 341
## 7 CHR_HSCHR6_MHC_COX_CTG1 335
## 8 CHR_HSCHR6_MHC_QBL_CTG1 317
## 9 19p13.2 315
## 10 CHR_HSCHR6_MHC_DBB_CTG1 312
## 11 17q11.2 298
## 12 CHR_HSCHR6_MHC_SSTO_CTG1 297
## 13 CHR_HSCHR6_MHC_MANN_CTG1 294
## 14 14q32.33 287
## 15 CHR_HSCHR6_MHC_MCF_CTG1 287
## 16 8p23.1 278
## 17 19q13.42 263
## 18 15q11.2 261
## 19 1q21.3 261
## 20 19q13.2 259
## 21 17q25.3 258
## 22 3p21.31 258
## 23 17q12 255
## 24 1q32.1 247
## 25 2p11.2 247
## 26 Xq28 247
## 27 11q12.1 236
## 28 12p13.31 234
## 29 22q11.21 231
## 30 6p22.1 231
## 31 19q13.33 228
## 32 7q22.1 222
## 33 17p13.1 220
## 34 8q24.3 214
## 35 16q22.1 213
## 36 19p13.11 211
## 37 7q34 209
## 38 21q22.3 207
## 39 CHR_HG76_PATCH 207
## 40 17q21.31 200
## 41 7q11.21 198
## 42 12q24.31 196
## 43 19p12 193
## 44 19q13.43 191
## 45 12q13.13 190
## 46 11q23.3 187
## 47 CHR_HSCHR14_3_CTG1 187
## 48 11q13.4 184
## 49 17q21.2 184
## 50 3q29 182
## 51 1p31.1 181
## 52 5q31.3 181
## 53 6q21 181
## 54 CHR_HSCHR6_MHC_APD_CTG1 180
## 55 2q35 179
## 56 9q34.3 179
## 57 11q13.1 178
## 58 5q35.3 178
## 59 7q11.23 178
## 60 17q25.1 176
## 61 1q44 176
## 62 14q24.3 173
## 63 1p32.3 171
## 64 6p21.1 167
## 65 15q26.1 166
## 66 5q31.1 166
## 67 9p13.3 165
## 68 2q31.1 162
## 69 6p21.33 162
## 70 11p11.2 161
## 71 20q13.33 161
## 72 19q13.12 160
## 73 12q24.33 159
## 74 14q12 158
## 75 20p13 158
## 76 7p11.2 158
## 77 11p15.5 157
## 78 19q13.41 155
## 79 1p36.11 154
## 80 1p36.33 154
## 81 20q13.12 152
## 82 Yp11.2 152
## 83 18p11.21 149
## 84 19q13.32 149
## 85 2q37.3 149
## 86 7q36.1 149
## 87 4p16.1 147
## 88 22q11.22 146
## 89 2q37.1 146
## 90 4p16.3 145
## 91 1p34.3 143
## 92 1p31.3 142
## 93 1p34.2 142
## 94 17q22 141
## 95 2q11.2 141
## 96 22q13.1 139
## 97 2q33.1 139
## 98 6p22.3 139
## 99 6q27 139
## 100 1q21.1 138
## 101 22q12.3 138
## 102 17p13.3 137
## 103 11q13.2 136
## 104 14q32.31 136
## 105 Xp11.23 136
## 106 5q11.2 134
## 107 16q21 133
## 108 19p13.12 131
## 109 1q23.3 131
## 110 9q34.11 131
## 111 1q41 130
## 112 21q22.11 130
## 113 16q12.1 129
## 114 2p23.3 129
## 115 2q21.1 129
## 116 1q21.2 128
## 117 4q12 128
## 118 1q42.13 127
## 119 11q24.2 126
## 120 17p13.2 125
## 121 1p13.3 125
## 122 Xp11.22 125
## 123 15q15.1 124
## 124 1p36.13 124
## 125 17q21.32 123
## 126 18q11.2 123
## 127 2p21 123
## 128 16q23.1 122
## 129 22q12.2 121
## 130 15q21.1 120
## 131 22q13.2 119
## 132 8q21.13 119
## 133 22q11.23 118
## 134 14q32.2 117
## 135 8p12 116
## 136 Xq13.1 116
## 137 13q34 115
## 138 Xq26.3 115
## 139 11p15.1 114
## 140 11q14.1 114
## 141 16p12.3 114
## 142 1p36.22 114
## 143 1q25.3 114
## 144 15q26.3 113
## 145 2p25.1 113
## 146 4q25 113
## 147 12q13.12 112
## 148 18q21.1 112
## 149 Xq22.1 112
## 150 12q12 111
## 151 1p36.12 111
## 152 1q43 111
## 153 7p14.3 111
## 154 1p13.2 110
## 155 5q13.2 110
## 156 Xp22.2 110
## 157 15q14 109
## 158 15q22.31 109
## 159 5q32 109
## 160 CHR_HSCHR7_2_CTG6 109
## 161 Yq11.23 109
## 162 10q26.3 108
## 163 15q25.1 108
## 164 17p12 108
## 165 8q22.1 108
## 166 Xq23 108
## 167 Yq11.223 108
## 168 3q21.3 107
## 169 8q22.3 107
## 170 Xq24 107
## 171 11p13 106
## 172 15q21.3 106
## 173 5q14.3 106
## 174 10q22.1 105
## 175 17q21.33 105
## 176 18q23 105
## 177 15q23 104
## 178 CHR_HSCHR17_7_CTG4 104
## 179 11q22.3 103
## 180 4q13.3 103
## 181 10q11.21 102
## 182 19q13.11 102
## 183 1p34.1 101
## 184 2q14.1 101
## 185 15q25.2 100
## 186 6q14.1 100
## 187 8p21.3 100
## 188 11q12.3 99
## 189 11q21 99
## 190 13q14.11 99
## 191 1p36.21 99
## 192 20q11.23 99
## 193 6p21.32 99
## 194 4p14 98
## 195 7p14.1 98
## 196 13q12.11 97
## 197 20q11.21 97
## 198 6q25.3 97
## 199 10q22.2 96
## 200 12q23.3 96
## 201 20p11.21 96
## 202 5q15 96
## 203 6p22.2 96
## 204 12q13.11 95
## 205 21q21.1 95
## 206 3p22.1 95
## 207 4q32.1 95
## 208 5p15.33 95
## 209 1q23.1 94
## 210 21p11.2 94
## 211 4q35.1 94
## 212 8q24.13 94
## 213 15q22.2 93
## 214 16q24.1 93
## 215 22q11.1 93
## 216 22q13.31 93
## 217 7q21.3 93
## 218 11q14.3 92
## 219 12p13.2 92
## 220 12q13.2 92
## 221 12q23.1 92
## 222 2q13 92
## 223 2q14.3 92
## 224 6p21.31 92
## 225 7p22.1 92
## 226 10p12.1 91
## 227 10p13 91
## 228 10q22.3 91
## 229 16p12.2 90
## 230 19q13.31 90
## 231 20q11.22 90
## 232 20q13.13 90
## 233 5q35.2 90
## 234 22q12.1 89
## 235 5q14.1 89
## 236 9p21.3 89
## 237 9q13 89
## 238 Yq11.222 89
## 239 2p12 88
## 240 3q22.1 88
## 241 12q13.3 87
## 242 18q12.1 87
## 243 1q22 87
## 244 4q13.2 87
## 245 6q25.1 87
## 246 8p22 87
## 247 Xp11.3 87
## 248 15q21.2 86
## 249 2p14 86
## 250 2q33.3 86
## 251 3p25.3 86
## 252 3q23 86
## 253 5q23.2 86
## 254 6q13 86
## 255 6q23.2 86
## 256 9p24.1 86
## 257 18p11.31 85
## 258 8q12.1 85
## 259 15q24.1 84
## 260 16p12.1 84
## 261 1q24.2 84
## 262 9q21.11 84
## 263 Xp11.4 84
## 264 12p13.33 83
## 265 2p13.3 83
## 266 5p13.2 83
## 267 5q31.2 83
## 268 5q33.3 83
## 269 12p12.1 82
## 270 12q15 82
## 271 1p35.3 82
## 272 1q42.2 82
## 273 4q22.1 82
## 274 4q24 82
## 275 4q31.3 82
## 276 7q33 82
## 277 9q33.3 82
## 278 2p16.1 81
## 279 5q35.1 81
## 280 10q11.22 80
## 281 10q26.13 80
## 282 22q13.33 80
## 283 3q25.1 80
## 284 7p15.2 80
## 285 12p11.21 79
## 286 12q22 79
## 287 1p33 79
## 288 13q14.3 78
## 289 14q22.1 78
## 290 14q23.1 78
## 291 16p13.11 78
## 292 1q32.2 78
## 293 4q35.2 78
## 294 6q15 78
## 295 7p22.3 78
## 296 9q22.33 78
## 297 9q31.1 78
## 298 17q24.2 77
## 299 3q26.33 77
## 300 5p15.31 77
## 301 5q13.3 77
## 302 7q32.1 77
## 303 7q35 77
## 304 Xq21.1 77
## 305 10q21.3 76
## 306 12q24.11 76
## 307 16q24.3 76
## 308 17q23.2 76
## 309 1q25.2 76
## 310 20p11.23 76
## 311 6p21.2 76
## 312 7p15.3 76
## 313 13q14.2 75
## 314 3p22.2 75
## 315 4q26 75
## 316 4q28.3 75
## 317 CHR_HSCHR19_4_CTG3_1 75
## 318 10p14 74
## 319 11q12.2 74
## 320 11q23.1 74
## 321 12p12.3 74
## 322 12q14.1 74
## 323 5p13.3 74
## 324 8p11.21 74
## 325 CHR_HSCHR15_4_CTG8 74
## 326 10p15.1 73
## 327 16q12.2 73
## 328 2p13.1 73
## 329 4q31.21 73
## 330 6p12.3 73
## 331 9q22.32 73
## 332 10q23.31 72
## 333 14q24.2 72
## 334 16p13.13 72
## 335 1p22.1 72
## 336 21q21.3 72
## 337 4q32.3 72
## 338 5p15.1 72
## 339 5p15.2 72
## 340 5q23.1 72
## 341 6q22.31 72
## 342 8q21.3 72
## 343 1p35.2 71
## 344 1p36.32 71
## 345 1q32.3 71
## 346 2p25.3 71
## 347 2q11.1 71
## 348 3p25.1 71
## 349 3q13.33 71
## 350 9q32 71
## 351 9q33.2 71
## 352 4p15.2 70
## 353 Xq27.3 70
## 354 15q26.2 69
## 355 19p13.13 69
## 356 5q34 69
## 357 7q31.1 69
## 358 7q36.3 69
## 359 12q24.32 68
## 360 2p15 68
## 361 3p14.1 68
## 362 6p12.1 68
## 363 7p13 68
## 364 7p21.3 68
## 365 10q25.3 67
## 366 12q21.2 67
## 367 15q24.2 67
## 368 2p24.1 67
## 369 3q27.1 67
## 370 6q23.3 67
## 371 9q22.31 67
## 372 18q21.2 66
## 373 19q12 66
## 374 20p12.1 66
## 375 3p14.3 66
## 376 3q24 66
## 377 3q26.2 66
## 378 7q21.11 66
## 379 10q23.33 65
## 380 10q24.32 65
## 381 17q23.3 65
## 382 18p11.32 65
## 383 1q23.2 65
## 384 9p11.2 65
## 385 Xq25 65
## 386 10p11.21 64
## 387 13q31.1 64
## 388 14q24.1 64
## 389 18p11.22 64
## 390 1p12 64
## 391 1p22.2 64
## 392 3p24.3 64
## 393 4q21.1 64
## 394 7p21.1 64
## 395 8p21.2 64
## 396 8q24.22 64
## 397 14q23.3 63
## 398 3p13 63
## 399 10q11.23 62
## 400 14q21.3 62
## 401 2q24.2 62
## 402 Xq13.2 62
## 403 11q24.1 61
## 404 1p21.3 61
## 405 1p22.3 61
## 406 20p12.3 61
## 407 2q36.3 61
## 408 3p21.1 61
## 409 6p25.2 61
## 410 10p12.31 60
## 411 11q14.2 60
## 412 13q13.3 60
## 413 14q32.12 60
## 414 16q13 60
## 415 20q13.2 60
## 416 2q32.1 60
## 417 3q11.2 60
## 418 3q27.3 60
## 419 9q21.13 60
## 420 CHR_HG2365_PATCH 60
## 421 16q22.2 59
## 422 1q42.3 59
## 423 2q24.1 59
## 424 3p22.3 59
## 425 5p13.1 59
## 426 8q24.21 59
## 427 12q24.23 58
## 428 13q12.3 58
## 429 15q25.3 58
## 430 21q11.2 58
## 431 2q31.2 58
## 432 2q34 58
## 433 5p12 58
## 434 7q31.2 58
## 435 8p11.23 58
## 436 CHR_HG1_PATCH 58
## 437 Xp11.21 58
## 438 10q23.1 57
## 439 11p11.12 57
## 440 12q21.31 57
## 441 13q12.12 57
## 442 1q25.1 57
## 443 21q22.2 57
## 444 2p22.3 57
## 445 3p21.2 57
## 446 8q22.2 57
## 447 Xp22.33 57
## 448 11q25 56
## 449 14q22.3 56
## 450 16p11.1 56
## 451 1p21.2 56
## 452 2p16.3 56
## 453 7q22.3 56
## 454 8q21.11 56
## 455 10q21.1 55
## 456 14q21.1 55
## 457 15q13.1 55
## 458 15q13.3 55
## 459 16q24.2 55
## 460 2q12.1 55
## 461 5q33.1 55
## 462 CHR_HSCHR16_1_CTG1 55
## 463 Xq26.2 55
## 464 11q13.3 54
## 465 13q32.3 54
## 466 15q13.2 54
## 467 18q12.2 54
## 468 18q21.32 54
## 469 1p35.1 54
## 470 3p12.3 54
## 471 3q21.2 54
## 472 3q26.1 54
## 473 8q11.23 54
## 474 9p21.1 54
## 475 9q31.3 54
## 476 Xq22.3 54
## 477 12q21.33 53
## 478 3q26.31 53
## 479 4q13.1 53
## 480 5q21.1 53
## 481 6p24.3 53
## 482 12q14.2 52
## 483 1q42.12 52
## 484 2q32.3 52
## 485 Xp21.1 52
## 486 10q23.2 51
## 487 10q24.1 51
## 488 11q13.5 51
## 489 11q24.3 51
## 490 12p13.32 51
## 491 12q14.3 51
## 492 16q23.2 51
## 493 18q12.3 51
## 494 18q22.3 51
## 495 2q23.3 51
## 496 3q13.31 51
## 497 3q22.3 51
## 498 6p25.1 51
## 499 6q22.1 51
## 500 10p11.22 50
## 501 12q24.13 50
## 502 14q31.3 50
## 503 1p36.23 50
## 504 20q13.32 50
## 505 3q13.2 50
## 506 6q14.3 50
## 507 8p23.3 50
## 508 8q12.3 50
## 509 CHR_HSCHR19LRC_PGF1_CTG3_1 50
## 510 10q25.2 49
## 511 11p14.1 49
## 512 12q23.2 49
## 513 18q22.1 49
## 514 2q24.3 49
## 515 4q34.1 49
## 516 6q25.2 49
## 517 7p12.3 49
## 518 8q11.21 49
## 519 10q26.11 48
## 520 12p11.22 48
## 521 12p13.1 48
## 522 12q21.1 48
## 523 13q12.13 48
## 524 1q24.3 48
## 525 3q25.31 48
## 526 4p15.1 48
## 527 4q28.1 48
## 528 5q12.1 48
## 529 5q12.3 48
## 530 9q21.32 48
## 531 CHR_HSCHR5_2_CTG1_1 48
## 532 10q25.1 47
## 533 13q31.3 47
## 534 14q32.13 47
## 535 4p13 47
## 536 4q23 47
## 537 6q12 47
## 538 6q16.1 47
## 539 6q24.1 47
## 540 7p14.2 47
## 541 11q23.2 46
## 542 13q32.1 46
## 543 1q24.1 46
## 544 1q31.1 46
## 545 2q14.2 46
## 546 2q21.2 46
## 547 2q22.3 46
## 548 2q32.2 46
## 549 4q31.1 46
## 550 9q21.33 46
## 551 Xp21.3 46
## 552 10q24.2 45
## 553 11p12 45
## 554 11q11 45
## 555 16p13.2 45
## 556 21p12 45
## 557 2q22.1 45
## 558 2q36.1 45
## 559 3q13.13 45
## 560 9q34.2 45
## 561 CHR_HSCHR19LRC_COX1_CTG3_1 45
## 562 14q32.11 44
## 563 15q15.3 44
## 564 17q24.3 44
## 565 18q21.33 44
## 566 1p13.1 44
## 567 2p24.3 44
## 568 6q24.2 44
## 569 8p21.1 44
## 570 9q34.13 44
## 571 10p15.3 43
## 572 12q24.21 43
## 573 13q14.13 43
## 574 20p12.2 43
## 575 4p15.32 43
## 576 8q23.1 43
## 577 9q31.2 43
## 578 10q24.31 42
## 579 11p15.3 42
## 580 14q23.2 42
## 581 1p36.31 42
## 582 21q22.12 42
## 583 21q22.13 42
## 584 2p22.1 42
## 585 2p22.2 42
## 586 3p24.1 42
## 587 Xp22.11 42
## 588 14q31.1 41
## 589 1q31.3 41
## 590 4p12 41
## 591 5p14.1 41
## 592 7q31.32 41
## 593 7q32.2 41
## 594 8q13.1 41
## 595 9p13.2 41
## 596 CHR_HG2290_PATCH 41
## 597 CHR_HSCHR17_2_CTG5 41
## 598 Xp22.31 41
## 599 14q13.2 40
## 600 14q21.2 40
## 601 16q23.3 40
## 602 20q12 40
## 603 20q13.31 40
## 604 2q33.2 40
## 605 3q26.32 40
## 606 3q28 40
## 607 4q27 40
## 608 4q34.3 40
## 609 6q24.3 40
## 610 8q13.3 40
## 611 10q26.2 39
## 612 3q25.2 39
## 613 6q22.33 39
## 614 8q21.2 39
## 615 9p24.3 39
## 616 CHR_HSCHR15_6_CTG8 39
## 617 CHR_HSCHR17_1_CTG5 39
## 618 13q21.33 38
## 619 17q24.1 38
## 620 3p14.2 38
## 621 4p15.33 38
## 622 5q21.3 38
## 623 5q33.2 38
## 624 6p25.3 38
## 625 8q24.12 38
## 626 Xq21.31 38
## 627 Xq22.2 38
## 628 10p11.23 37
## 629 13q22.3 37
## 630 16p13.12 37
## 631 18q21.31 37
## 632 4q21.21 37
## 633 6q26 37
## 634 7p12.1 37
## 635 9p23 37
## 636 9q22.1 37
## 637 CHR_HSCHR14_7_CTG1 37
## 638 MT 37
## 639 11p14.3 36
## 640 15q24.3 36
## 641 1q31.2 36
## 642 2p23.2 36
## 643 2q12.3 36
## 644 4q21.22 36
## 645 11p15.2 35
## 646 13q33.3 35
## 647 17q23.1 35
## 648 3p26.1 35
## 649 5p14.3 35
## 650 9q33.1 35
## 651 CHR_HSCHR19LRC_PGF2_CTG3_1 35
## 652 Xq21.33 35
## 653 Xq26.1 35
## 654 13q33.1 34
## 655 1p11.2 34
## 656 21q21.2 34
## 657 3p24.2 34
## 658 3p25.2 34
## 659 3q21.1 34
## 660 7q21.2 34
## 661 CHR_HG109_PATCH 34
## 662 CHR_HSCHR22_1_CTG7 34
## 663 Xq12 34
## 664 15q12 33
## 665 1p21.1 33
## 666 7q11.22 33
## 667 7q31.33 33
## 668 7q32.3 33
## 669 9p22.3 33
## 670 13q12.2 32
## 671 4p11 32
## 672 4q21.23 32
## 673 4q31.23 32
## 674 6p12.2 32
## 675 7q21.13 32
## 676 8p23.2 32
## 677 9q22.2 32
## 678 Yq11.221 32
## 679 10p12.2 31
## 680 10q21.2 31
## 681 11q22.1 31
## 682 3q12.3 31
## 683 5q22.3 31
## 684 CHR_HG1342_HG2282_PATCH 31
## 685 CHR_HSCHR12_3_CTG2 31
## 686 CHR_HSCHR19LRC_COX2_CTG3_1 31
## 687 13q11 30
## 688 1p32.1 30
## 689 2q31.3 30
## 690 3q13.12 30
## 691 3q25.32 30
## 692 9p21.2 30
## 693 Xq27.1 30
## 694 10q24.33 29
## 695 13q13.1 29
## 696 14q32.32 29
## 697 15q15.2 29
## 698 2q12.2 29
## 699 6q16.3 29
## 700 8q11.1 29
## 701 CHR_HG30_PATCH 29
## 702 Yq11.21 29
## 703 12p11.23 28
## 704 13q21.1 28
## 705 2p23.1 28
## 706 3q25.33 28
## 707 5q22.1 28
## 708 5q23.3 28
## 709 6p23 28
## 710 6p24.2 28
## 711 7q21.12 28
## 712 9p13.1 28
## 713 Xp22.12 28
## 714 11q22.2 27
## 715 2p16.2 27
## 716 5p15.32 27
## 717 5q13.1 27
## 718 7q31.31 27
## 719 10p11.1 26
## 720 13q21.31 26
## 721 1p32.2 26
## 722 20q11.1 26
## 723 2q21.3 26
## 724 3q12.1 26
## 725 4q33 26
## 726 8q13.2 26
## 727 8q23.3 26
## 728 9p11.1 26
## 729 9p22.1 26
## 730 CHR_HG26_PATCH 26
## 731 CHR_HSCHR12_2_CTG2 26
## 732 CHR_HSCHR17_3_CTG1 26
## 733 CHR_HSCHR17_4_CTG4 26
## 734 Xp22.13 26
## 735 12q24.22 25
## 736 13q31.2 25
## 737 14q13.3 25
## 738 2p24.2 25
## 739 2p25.2 25
## 740 3p26.3 25
## 741 7q36.2 25
## 742 9p12 25
## 743 9q21.2 25
## 744 CHR_HG1815_PATCH 25
## 745 CHR_HG2023_PATCH 25
## 746 Xq13.3 25
## 747 10q23.32 24
## 748 13q21.2 24
## 749 15q11.1 24
## 750 4q28.2 24
## 751 4q31.22 24
## 752 8p11.22 24
## 753 9q21.12 24
## 754 CHR_HSCHR15_1_CTG8 24
## 755 CHR_HSCHR2_6_CTG7_2 24
## 756 CHR_HSCHR22_1_CTG3 24
## 757 Xp21.2 24
## 758 13q22.1 23
## 759 17q21.1 23
## 760 3q22.2 23
## 761 4q22.3 23
## 762 9p24.2 23
## 763 CHR_HG2030_PATCH 23
## 764 CHR_HG708_PATCH 23
## 765 CHR_HSCHR19LRC_LRC_I_CTG3_1 23
## 766 CHR_HSCHR19LRC_LRC_T_CTG3_1 23
## 767 CHR_HSCHR4_11_CTG12 23
## 768 CHR_HSCHR5_1_CTG1_1 23
## 769 CHR_HSCHR8_3_CTG7 23
## 770 12q21.32 22
## 771 13q21.32 22
## 772 20p11.22 22
## 773 2p13.2 22
## 774 3p12.2 22
## 775 5q14.2 22
## 776 5q22.2 22
## 777 8p11.1 22
## 778 CHR_HSCHR4_1_CTG9 22
## 779 CHR_HSCHR7_3_CTG4_4 22
## 780 14q13.1 21
## 781 18q22.2 21
## 782 3p12.1 21
## 783 3q27.2 21
## 784 7p21.2 21
## 785 9q21.31 21
## 786 CHR_HG2002_PATCH 21
## 787 CHR_HG2066_PATCH 21
## 788 CHR_HSCHR15_1_CTG1 21
## 789 CHR_HSCHR19LRC_LRC_J_CTG3_1 21
## 790 CHR_HSCHR8_3_CTG1 21
## 791 Xq11.2 21
## 792 12q24.12 20
## 793 13q32.2 20
## 794 16q11.2 20
## 795 3p11.1 20
## 796 4p15.31 20
## 797 6p24.1 20
## 798 CHR_HG2198_PATCH 20
## 799 CHR_HG2246_HG2248_HG2276_PATCH 20
## 800 CHR_HG926_PATCH 20
## 801 CHR_HSCHR17_10_CTG4 20
## 802 CHR_HSCHR19LRC_LRC_S_CTG3_1 20
## 803 10p15.2 19
## 804 13q22.2 19
## 805 14q22.2 19
## 806 1q42.11 19
## 807 2q37.2 19
## 808 4q32.2 19
## 809 CHR_HG2046_PATCH 19
## 810 CHR_HG2513_PATCH 19
## 811 12p11.1 18
## 812 16q22.3 18
## 813 20p11.1 18
## 814 CHR_HG2419_PATCH 18
## 815 CHR_HSCHR1_5_CTG3 18
## 816 CHR_HSCHR15_5_CTG8 18
## 817 CHR_HSCHR19KIR_FH15_B_HAP_CTG3_1 18
## 818 2q22.2 17
## 819 4p16.2 17
## 820 5q11.1 17
## 821 6p11.2 17
## 822 6q16.2 17
## 823 8q24.11 17
## 824 CHR_HG2087_PATCH 17
## 825 CHR_HG2217_PATCH 17
## 826 CHR_HSCHR1_2_CTG3 17
## 827 CHR_HSCHR19KIR_CA01-TB04_CTG3_1 17
## 828 CHR_HSCHR19KIR_FH05_B_HAP_CTG3_1 17
## 829 10p12.33 16
## 830 10q26.12 16
## 831 18p11.23 16
## 832 2q23.1 16
## 833 5p14.2 16
## 834 8q23.2 16
## 835 CHR_HG1362_PATCH 16
## 836 CHR_HG142_HG150_NOVEL_TEST 16
## 837 CHR_HG28_PATCH 16
## 838 CHR_HSCHR11_1_CTG8 16
## 839 CHR_HSCHR19KIR_CA01-TB01_CTG3_1 16
## 840 CHR_HSCHR8_8_CTG1 16
## 841 Xq21.2 16
## 842 Xq27.2 16
## 843 13q13.2 15
## 844 17q11.1 15
## 845 19q11 15
## 846 3q13.32 15
## 847 7p12.2 15
## 848 8q24.23 15
## 849 9p22.2 15
## 850 CHR_HG2114_PATCH 15
## 851 CHR_HSCHR1_4_CTG3 15
## 852 CHR_HSCHR11_1_CTG7 15
## 853 CHR_HSCHR19_3_CTG3_1 15
## 854 CHR_HSCHR19KIR_0019-4656-B_CTG3_1 15
## 855 CHR_HSCHR19KIR_FH08_BAX_HAP_CTG3_1 15
## 856 CHR_HSCHR19KIR_FH13_BA2_HAP_CTG3_1 15
## 857 12p12.2 14
## 858 4q21.3 14
## 859 4q34.2 14
## 860 9q12 14
## 861 CHR_HG2021_PATCH 14
## 862 CHR_HG439_PATCH 14
## 863 CHR_HG545_PATCH 14
## 864 CHR_HSCHR1_1_CTG3 14
## 865 CHR_HSCHR1_1_CTG31 14
## 866 CHR_HSCHR1_5_CTG32_1 14
## 867 CHR_HSCHR16_3_CTG1 14
## 868 CHR_HSCHR19KIR_7191059-2_CTG3_1 14
## 869 CHR_HSCHR19KIR_LUCE_BDEL_HAP_CTG3_1 14
## 870 13q33.2 13
## 871 17q25.2 13
## 872 20q13.11 13
## 873 22q13.32 13
## 874 6q11.1 13
## 875 6q22.32 13
## 876 7p22.2 13
## 877 9q34.12 13
## 878 CHR_HSCHR11_2_CTG1_1 13
## 879 CHR_HSCHR19KIR_502960008-1_CTG3_1 13
## 880 CHR_HSCHR19KIR_502960008-2_CTG3_1 13
## 881 CHR_HSCHR19KIR_7191059-1_CTG3_1 13
## 882 CHR_HSCHR19KIR_ABC08_AB_HAP_T_P_CTG3_1 13
## 883 CHR_HSCHR19KIR_CA01-TA01_1_CTG3_1 13
## 884 CHR_HSCHR19KIR_CA01-TA01_2_CTG3_1 13
## 885 CHR_HSCHR19KIR_FH13_A_HAP_CTG3_1 13
## 886 CHR_HSCHR19KIR_FH15_A_HAP_CTG3_1 13
## 887 CHR_HSCHR19KIR_G248_A_HAP_CTG3_1 13
## 888 CHR_HSCHR19KIR_GRC212_AB_HAP_CTG3_1 13
## 889 CHR_HSCHR19KIR_HG2394_CTG3_1 13
## 890 CHR_HSCHR19KIR_RSH_A_HAP_CTG3_1 13
## 891 CHR_HSCHR19KIR_RSH_BA2_HAP_CTG3_1 13
## 892 CHR_HSCHR19KIR_T7526_A_HAP_CTG3_1 13
## 893 CHR_HSCHR19KIR_T7526_BDEL_HAP_CTG3_1 13
## 894 CHR_HSCHR4_6_CTG12 13
## 895 Xq11.1 13
## 896 3q12.2 12
## 897 3q13.11 12
## 898 5q21.2 12
## 899 8q12.2 12
## 900 CHR_HG2499_PATCH 12
## 901 CHR_HSCHR11_1_CTG6 12
## 902 CHR_HSCHR17_1_CTG4 12
## 903 CHR_HSCHR19KIR_0019-4656-A_CTG3_1 12
## 904 CHR_HSCHR19KIR_ABC08_A1_HAP_CTG3_1 12
## 905 CHR_HSCHR19KIR_FH05_A_HAP_CTG3_1 12
## 906 CHR_HSCHR19KIR_FH06_A_HAP_CTG3_1 12
## 907 CHR_HSCHR19KIR_FH06_BA1_HAP_CTG3_1 12
## 908 CHR_HSCHR19KIR_FH08_A_HAP_CTG3_1 12
## 909 CHR_HSCHR19KIR_G085_A_HAP_CTG3_1 12
## 910 CHR_HSCHR19KIR_G085_BA1_HAP_CTG3_1 12
## 911 CHR_HSCHR19KIR_RP5_B_HAP_CTG3_1 12
## 912 CHR_HSCHR3_5_CTG1 12
## 913 13q14.12 11
## 914 3p26.2 11
## 915 6q14.2 11
## 916 CHR_HG1309_PATCH 11
## 917 CHR_HG1398_PATCH 11
## 918 CHR_HG151_NOVEL_TEST 11
## 919 CHR_HG2263_PATCH 11
## 920 CHR_HSCHR11_1_CTG1_2 11
## 921 CHR_HSCHR15_3_CTG3 11
## 922 CHR_HSCHR17_1_CTG1 11
## 923 CHR_HSCHR19_1_CTG2 11
## 924 CHR_HSCHR19_3_CTG2 11
## 925 CHR_HSCHR19KIR_G248_BA2_HAP_CTG3_1 11
## 926 CHR_HSCHR22_3_CTG1 11
## 927 Xq21.32 11
## 928 3p23 10
## 929 CHR_HG1277_PATCH 10
## 930 CHR_HG2057_PATCH 10
## 931 CHR_HG2266_PATCH 10
## 932 CHR_HSCHR1_2_CTG31 10
## 933 CHR_HSCHR10_1_CTG2 10
## 934 CHR_HSCHR15_1_CTG3 10
## 935 CHR_HSCHR15_2_CTG3 10
## 936 CHR_HSCHR17_1_CTG2 10
## 937 CHR_HSCHR19KIR_ABC08_AB_HAP_C_P_CTG3_1 10
## 938 CHR_HSCHR19KIR_HG2393_CTG3_1 10
## 939 CHR_HSCHR19KIR_LUCE_A_HAP_CTG3_1 10
## 940 CHR_HSCHR3_9_CTG3 10
## 941 CHR_HSCHR5_8_CTG1 10
## 942 CHR_HSCHR7_2_CTG1 10
## 943 18q11.1 9
## 944 19q13.13 9
## 945 2p11.1 9
## 946 3p11.2 9
## 947 CHR_HG1832_PATCH 9
## 948 CHR_HG2058_PATCH 9
## 949 CHR_HG2095_PATCH 9
## 950 CHR_HG2115_PATCH 9
## 951 CHR_HG2232_PATCH 9
## 952 CHR_HG2285_HG106_HG2252_PATCH 9
## 953 CHR_HG2291_PATCH 9
## 954 CHR_HG2334_PATCH 9
## 955 CHR_HG2525_PATCH 9
## 956 CHR_HSCHR1_ALT2_1_CTG32_1 9
## 957 CHR_HSCHR11_1_CTG5 9
## 958 CHR_HSCHR11_2_CTG8 9
## 959 CHR_HSCHR12_1_CTG1 9
## 960 CHR_HSCHR13_1_CTG3 9
## 961 CHR_HSCHR14_1_CTG1 9
## 962 CHR_HSCHR17_6_CTG4 9
## 963 CHR_HSCHR19_2_CTG2 9
## 964 CHR_HSCHR19KIR_0010-5217-AB_CTG3_1 9
## 965 CHR_HSCHR19KIR_GRC212_BA1_HAP_CTG3_1 9
## 966 CHR_HSCHR19KIR_HG2396_CTG3_1 9
## 967 CHR_HSCHR2_3_CTG15 9
## 968 CHR_HSCHR22_2_CTG1 9
## 969 CHR_HSCHR6_1_CTG8 9
## 970 CHR_HSCHR8_9_CTG1 9
## 971 CHR_HSCHR9_1_CTG5 9
## 972 15q22.1 8
## 973 22p11.2 8
## 974 2q23.2 8
## 975 3q11.1 8
## 976 CHR_HG1311_PATCH 8
## 977 CHR_HG1395_PATCH 8
## 978 CHR_HG1535_PATCH 8
## 979 CHR_HG2111_PATCH 8
## 980 CHR_HG2121_PATCH 8
## 981 CHR_HSCHR1_3_CTG32_1 8
## 982 CHR_HSCHR1_4_CTG31 8
## 983 CHR_HSCHR1_6_CTG3 8
## 984 CHR_HSCHR15_3_CTG8 8
## 985 CHR_HSCHR17_2_CTG2 8
## 986 CHR_HSCHR17_5_CTG4 8
## 987 CHR_HSCHR19KIR_CA04_CTG3_1 8
## 988 CHR_HSCHR2_8_CTG7_2 8
## 989 CHR_HSCHR22_1_CTG1 8
## 990 CHR_HSCHR22_4_CTG1 8
## 991 CHR_HSCHR22_7_CTG1 8
## 992 CHR_HSCHR3_1_CTG1 8
## 993 CHR_HSCHR6_1_CTG4 8
## 994 CHR_HSCHR7_1_CTG1 8
## 995 CHR_HSCHR7_2_CTG4_4 8
## 996 CHR_HSCHR8_5_CTG7 8
## 997 KI270727.1 8
## 998 KI270728.1 8
## 999 11p14.2 7
## 1000 14q31.2 7
## 1001 2q36.2 7
## 1002 4q22.2 7
## 1003 6q23.1 7
## 1004 CHR_HG1485_PATCH 7
## 1005 CHR_HSCHR1_2_CTG32_1 7
## 1006 CHR_HSCHR10_1_CTG1 7
## 1007 CHR_HSCHR10_1_CTG4 7
## 1008 CHR_HSCHR11_1_CTG3_1 7
## 1009 CHR_HSCHR12_4_CTG2 7
## 1010 CHR_HSCHR16_5_CTG1 7
## 1011 CHR_HSCHR16_5_CTG3_1 7
## 1012 CHR_HSCHR16_CTG2 7
## 1013 CHR_HSCHR2_2_CTG7 7
## 1014 CHR_HSCHR22_1_CTG6 7
## 1015 CHR_HSCHR22_8_CTG1 7
## 1016 CHR_HSCHR3_1_CTG3 7
## 1017 CHR_HSCHR3_4_CTG2_1 7
## 1018 CHR_HSCHR3_5_CTG3 7
## 1019 CHR_HSCHR5_2_CTG5 7
## 1020 CHR_HSCHR5_3_CTG5 7
## 1021 CHR_HSCHR6_1_CTG5 7
## 1022 CHR_HSCHR7_1_CTG4_4 7
## 1023 CHR_HSCHR7_1_CTG6 7
## 1024 CHR_HSCHR8_4_CTG7 7
## 1025 CHR_HSCHRX_1_CTG3 7
## 1026 Xp22.32 7
## 1027 1p31.2 6
## 1028 3p21.33 6
## 1029 7p15.1 6
## 1030 CHR_HG2072_PATCH 6
## 1031 CHR_HG2191_PATCH 6
## 1032 CHR_HG2213_PATCH 6
## 1033 CHR_HG2412_PATCH 6
## 1034 CHR_HG986_PATCH 6
## 1035 CHR_HSCHR1_8_CTG3 6
## 1036 CHR_HSCHR12_1_CTG2_1 6
## 1037 CHR_HSCHR14_8_CTG1 6
## 1038 CHR_HSCHR18_1_CTG1_1 6
## 1039 CHR_HSCHR18_3_CTG2_1 6
## 1040 CHR_HSCHR19_5_CTG2 6
## 1041 CHR_HSCHR20_1_CTG3 6
## 1042 CHR_HSCHR21_4_CTG1_1 6
## 1043 CHR_HSCHR22_5_CTG1 6
## 1044 CHR_HSCHR22_6_CTG1 6
## 1045 CHR_HSCHR3_3_CTG3 6
## 1046 CHR_HSCHR3_4_CTG3 6
## 1047 CHR_HSCHR3_6_CTG3 6
## 1048 CHR_HSCHR3_7_CTG3 6
## 1049 CHR_HSCHR3_8_CTG3 6
## 1050 CHR_HSCHR4_7_CTG12 6
## 1051 CHR_HSCHR4_9_CTG12 6
## 1052 CHR_HSCHR5_3_CTG1 6
## 1053 CHR_HSCHR8_1_CTG1 6
## 1054 CHR_HSCHR8_7_CTG1 6
## 1055 7q22.2 5
## 1056 CHR_HG126_PATCH 5
## 1057 CHR_HG1445_PATCH 5
## 1058 CHR_HG2236_PATCH 5
## 1059 CHR_HSCHR1_3_CTG31 5
## 1060 CHR_HSCHR11_3_CTG1 5
## 1061 CHR_HSCHR13_1_CTG1 5
## 1062 CHR_HSCHR16_4_CTG3_1 5
## 1063 CHR_HSCHR17_2_CTG1 5
## 1064 CHR_HSCHR18_2_CTG2 5
## 1065 CHR_HSCHR2_1_CTG15 5
## 1066 CHR_HSCHR2_2_CTG15 5
## 1067 CHR_HSCHR21_2_CTG1_1 5
## 1068 CHR_HSCHR21_5_CTG2 5
## 1069 CHR_HSCHR21_6_CTG1_1 5
## 1070 CHR_HSCHR3_6_CTG2_1 5
## 1071 CHR_HSCHR4_12_CTG12 5
## 1072 CHR_HSCHR6_1_CTG2 5
## 1073 CHR_HSCHR7_3_CTG6 5
## 1074 CHR_HSCHR8_1_CTG6 5
## 1075 CHR_HSCHRX_2_CTG3 5
## 1076 15q22.33 4
## 1077 9q11 4
## 1078 CHR_HG107_PATCH 4
## 1079 CHR_HG2060_PATCH 4
## 1080 CHR_HG2104_PATCH 4
## 1081 CHR_HG2235_PATCH 4
## 1082 CHR_HG2471_PATCH 4
## 1083 CHR_HSCHR10_1_CTG3 4
## 1084 CHR_HSCHR12_3_CTG2_1 4
## 1085 CHR_HSCHR12_9_CTG2_1 4
## 1086 CHR_HSCHR16_2_CTG3_1 4
## 1087 CHR_HSCHR16_4_CTG1 4
## 1088 CHR_HSCHR17_1_CTG9 4
## 1089 CHR_HSCHR17_3_CTG2 4
## 1090 CHR_HSCHR18_ALT2_CTG2_1 4
## 1091 CHR_HSCHR2_1_CTG1 4
## 1092 CHR_HSCHR2_1_CTG7 4
## 1093 CHR_HSCHR2_1_CTG7_2 4
## 1094 CHR_HSCHR21_3_CTG1_1 4
## 1095 CHR_HSCHR22_1_CTG2 4
## 1096 CHR_HSCHR22_1_CTG4 4
## 1097 CHR_HSCHR22_1_CTG5 4
## 1098 CHR_HSCHR3_2_CTG3 4
## 1099 CHR_HSCHR3_9_CTG2_1 4
## 1100 CHR_HSCHR4_1_CTG4 4
## 1101 CHR_HSCHR4_3_CTG12 4
## 1102 CHR_HSCHR5_2_CTG1 4
## 1103 CHR_HSCHR5_4_CTG1 4
## 1104 CHR_HSCHR5_5_CTG1 4
## 1105 CHR_HSCHR5_6_CTG1 4
## 1106 CHR_HSCHR6_1_CTG9 4
## 1107 CHR_HSCHR8_2_CTG7 4
## 1108 CHR_HSCHR8_4_CTG1 4
## 1109 CHR_HSCHR9_1_CTG3 4
## 1110 GL000220.1 4
## 1111 KI270713.1 4
## 1112 KI270721.1 4
## 1113 KI270733.1 4
## 1114 KI270734.1 4
## 1115 3p21.32 3
## 1116 CHR_HG1298_PATCH 3
## 1117 CHR_HG1320_PATCH 3
## 1118 CHR_HG1524_PATCH 3
## 1119 CHR_HG1708_PATCH 3
## 1120 CHR_HG2063_PATCH 3
## 1121 CHR_HG2133_PATCH 3
## 1122 CHR_HG2247_PATCH 3
## 1123 CHR_HG2288_HG2289_PATCH 3
## 1124 CHR_HG2442_PATCH 3
## 1125 CHR_HG2509_PATCH 3
## 1126 CHR_HG2510_PATCH 3
## 1127 CHR_HG2511_PATCH 3
## 1128 CHR_HG699_PATCH 3
## 1129 CHR_HG705_PATCH 3
## 1130 CHR_HG721_PATCH 3
## 1131 CHR_HSCHR1_1_CTG11 3
## 1132 CHR_HSCHR11_2_CTG1 3
## 1133 CHR_HSCHR12_2_CTG2_1 3
## 1134 CHR_HSCHR12_4_CTG2_1 3
## 1135 CHR_HSCHR12_5_CTG2_1 3
## 1136 CHR_HSCHR12_6_CTG2_1 3
## 1137 CHR_HSCHR13_1_CTG5 3
## 1138 CHR_HSCHR14_2_CTG1 3
## 1139 CHR_HSCHR15_2_CTG8 3
## 1140 CHR_HSCHR16_1_CTG3_1 3
## 1141 CHR_HSCHR17_3_CTG4 3
## 1142 CHR_HSCHR18_2_CTG2_1 3
## 1143 CHR_HSCHR19_1_CTG3_1 3
## 1144 CHR_HSCHR19_2_CTG3_1 3
## 1145 CHR_HSCHR2_1_CTG5 3
## 1146 CHR_HSCHR2_2_CTG1 3
## 1147 CHR_HSCHR2_3_CTG7_2 3
## 1148 CHR_HSCHR2_4_CTG1 3
## 1149 CHR_HSCHR20_1_CTG1 3
## 1150 CHR_HSCHR20_1_CTG4 3
## 1151 CHR_HSCHR3_1_CTG2_1 3
## 1152 CHR_HSCHR3_2_CTG2_1 3
## 1153 CHR_HSCHR3_4_CTG1 3
## 1154 CHR_HSCHR3_8_CTG2_1 3
## 1155 CHR_HSCHR4_1_CTG12 3
## 1156 CHR_HSCHR4_5_CTG12 3
## 1157 CHR_HSCHR5_4_CTG1_1 3
## 1158 CHR_HSCHR7_3_CTG1 3
## 1159 CHR_HSCHR8_2_CTG1 3
## 1160 CHR_HSCHR9_1_CTG2 3
## 1161 GL000195.1 3
## 1162 Yq12 3
## 1163 15q22.32 2
## 1164 6q22.2 2
## 1165 8q21.12 2
## 1166 CHR_HG1384_PATCH 2
## 1167 CHR_HG2022_PATCH 2
## 1168 CHR_HG2047_PATCH 2
## 1169 CHR_HG2067_PATCH 2
## 1170 CHR_HG2088_PATCH 2
## 1171 CHR_HG2116_PATCH 2
## 1172 CHR_HG2128_PATCH 2
## 1173 CHR_HG2233_PATCH 2
## 1174 CHR_HG2249_PATCH 2
## 1175 CHR_HG2512_PATCH 2
## 1176 CHR_HSCHR1_9_CTG3 2
## 1177 CHR_HSCHR17_8_CTG4 2
## 1178 CHR_HSCHR17_9_CTG4 2
## 1179 CHR_HSCHR18_1_CTG1 2
## 1180 CHR_HSCHR18_1_CTG2_1 2
## 1181 CHR_HSCHR18_5_CTG1_1 2
## 1182 CHR_HSCHR18_ALT21_CTG2_1 2
## 1183 CHR_HSCHR2_7_CTG7_2 2
## 1184 CHR_HSCHR20_1_CTG2 2
## 1185 CHR_HSCHR21_8_CTG1_1 2
## 1186 CHR_HSCHR3_5_CTG2_1 2
## 1187 CHR_HSCHR4_8_CTG12 2
## 1188 CHR_HSCHR5_1_CTG5 2
## 1189 CHR_HSCHR6_1_CTG7 2
## 1190 CHR_HSCHR6_8_CTG1 2
## 1191 CHR_HSCHR8_1_CTG7 2
## 1192 CHR_HSCHR8_5_CTG1 2
## 1193 CHR_HSCHR8_6_CTG1 2
## 1194 CHR_HSCHR8_7_CTG7 2
## 1195 CHR_HSCHR9_1_CTG4 2
## 1196 CHR_HSCHR9_1_CTG6 2
## 1197 GL000194.1 2
## 1198 GL000205.2 2
## 1199 GL000213.1 2
## 1200 KI270442.1 2
## 1201 KI270726.1 2
## 1202 KI270731.1 2
## 1203 12q11 1
## 1204 14p11.2 1
## 1205 6q11.2 1
## 1206 8q11.22 1
## 1207 CHR_HG1531_PATCH 1
## 1208 CHR_HG1651_PATCH 1
## 1209 CHR_HG2062_PATCH 1
## 1210 CHR_HG2239_PATCH 1
## 1211 CHR_HSCHR1_1_CTG32_1 1
## 1212 CHR_HSCHR1_3_CTG3 1
## 1213 CHR_HSCHR10_1_CTG6 1
## 1214 CHR_HSCHR12_5_CTG2 1
## 1215 CHR_HSCHR12_8_CTG2_1 1
## 1216 CHR_HSCHR14_9_CTG1 1
## 1217 CHR_HSCHR17_11_CTG4 1
## 1218 CHR_HSCHR17_12_CTG4 1
## 1219 CHR_HSCHR17_2_CTG4 1
## 1220 CHR_HSCHR18_2_CTG1_1 1
## 1221 CHR_HSCHR19_4_CTG2 1
## 1222 CHR_HSCHR2_2_CTG7_2 1
## 1223 CHR_HSCHR2_3_CTG1 1
## 1224 CHR_HSCHR3_3_CTG1 1
## 1225 CHR_HSCHR4_1_CTG6 1
## 1226 CHR_HSCHR4_2_CTG12 1
## 1227 CHR_HSCHR4_2_CTG4 1
## 1228 CHR_HSCHR4_4_CTG12 1
## 1229 CHR_HSCHR5_1_CTG1 1
## 1230 CHR_HSCHR5_7_CTG1 1
## 1231 CHR_HSCHR6_1_CTG3 1
## 1232 CHR_HSCHR6_1_CTG6 1
## 1233 CHR_HSCHR7_1_CTG7 1
## 1234 CHR_HSCHR7_2_CTG7 1
## 1235 CHR_HSCHR9_1_CTG1 1
## 1236 CHR_HSCHRX_2_CTG12 1
## 1237 GL000009.2 1
## 1238 GL000216.2 1
## 1239 GL000218.1 1
## 1240 GL000219.1 1
## 1241 GL000225.1 1
## 1242 KI270711.1 1
## 1243 KI270744.1 1
## 1244 KI270750.1 1anno_gene %>% count(cytoband) %>% arrange(desc(n)) %>% summary()## cytoband n
## Length:1244 Min. : 1.00
## Class :character 1st Qu.: 10.00
## Mode :character Median : 38.00
## Mean : 53.96
## 3rd Qu.: 76.00
## Max. :421.00