Mercurial > repos > thondeboer > neat_genreads
diff test-data/chrMT-PE-VCF-BAM-EXCLUDELIST-genMutModel.p @ 0:6e75a84e9338 draft
planemo upload commit e96b43f96afce6a7b7dfd4499933aad7d05c955e-dirty
author | thondeboer |
---|---|
date | Tue, 15 May 2018 02:39:53 -0400 |
parents | |
children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/chrMT-PE-VCF-BAM-EXCLUDELIST-genMutModel.p Tue May 15 02:39:53 2018 -0400 @@ -0,0 +1,1327 @@ +(dp0 +S'HIGH_MUT_REGIONS' +p1 +(lp2 +(S'chrMT' +p3 +I8000 +I16000 +F0.000875 +tp4 +asS'COMMON_VARIANTS' +p5 +(lp6 +(g3 +I10749 +S'A' +p7 +S'G' +p8 +F1e-05 +tp9 +a(g3 +I11272 +S'G' +p10 +S'A' +p11 +F1e-05 +tp12 +a(g3 +I11742 +S'C' +p13 +S'T' +p14 +F1e-05 +tp15 +a(g3 +I13131 +S'-' +p16 +S'T' +p17 +F1e-05 +tp18 +a(g3 +I13272 +S'A' +p19 +S'G' +p20 +F1e-05 +tp21 +a(g3 +I13803 +S'G' +p22 +S'A' +p23 +F1e-05 +tp24 +a(g3 +I14066 +S'C' +p25 +S'T' +p26 +F1e-05 +tp27 +asS'SNP_TRANS_FREQ' +p28 +(dp29 +(S'A' +p30 +S'G' +p31 +tp32 +F1.0 +s(S'C' +p33 +g17 +tp34 +F1.0 +s(g31 +g30 +tp35 +F1.0 +ssS'SNP_FREQ' +p36 +F0.8571428571428571 +sS'TRINUC_MUT_PROB' +p37 +(dp38 +S'ACC' +p39 +F0.0 +sS'ATG' +p40 +F0.0 +sS'AAG' +p41 +F0.0 +sS'AAA' +p42 +F0.0 +sS'ATC' +p43 +F0.0 +sS'AAC' +p44 +F0.0041841004184100415 +sS'ATA' +p45 +F0.0 +sS'AGG' +p46 +F0.017241379310344827 +sS'CCT' +p47 +F0.003816793893129771 +sS'CTC' +p48 +F0.0 +sS'AGC' +p49 +F0.007751937984496124 +sS'ACA' +p50 +F0.0 +sS'AGA' +p51 +F0.0 +sS'CAT' +p52 +F0.004878048780487805 +sS'AAT' +p53 +F0.0 +sS'ATT' +p54 +F0.0 +sS'CTG' +p55 +F0.0 +sS'CTA' +p56 +F0.0 +sS'ACT' +p57 +F0.0 +sS'CAC' +p58 +F0.0 +sS'ACG' +p59 +F0.0 +sS'CAA' +p60 +F0.0 +sS'AGT' +p61 +F0.0 +sS'CCA' +p62 +F0.0 +sS'CCG' +p63 +F0.0 +sS'CCC' +p64 +F0.0 +sS'TAT' +p65 +F0.0 +sS'GGT' +p66 +F0.0 +sS'TGT' +p67 +F0.0 +sS'CGA' +p68 +F0.0 +sS'CAG' +p69 +F0.0 +sS'CGC' +p70 +F0.0 +sS'GAT' +p71 +F0.0 +sS'CGG' +p72 +F0.0 +sS'CTT' +p73 +F0.0 +sS'TGC' +p74 +F0.0 +sS'GGG' +p75 +F0.0 +sS'TAG' +p76 +F0.0 +sS'GGA' +p77 +F0.0 +sS'TAA' +p78 +F0.0 +sS'GGC' +p79 +F0.0 +sS'TAC' +p80 +F0.0 +sS'GAG' +p81 +F0.0 +sS'TCG' +p82 +F0.0 +sS'TTA' +p83 +F0.0 +sS'TTT' +p84 +F0.0 +sS'GAC' +p85 +F0.0 +sS'CGT' +p86 +F0.0 +sS'GAA' +p87 +F0.0 +sS'TCA' +p88 +F0.0 +sS'GCA' +p89 +F0.0 +sS'GTA' +p90 +F0.0 +sS'GCC' +p91 +F0.008264462809917356 +sS'GTC' +p92 +F0.0 +sS'GCG' +p93 +F0.0 +sS'GTG' +p94 +F0.0 +sS'TTC' +p95 +F0.0 +sS'GTT' +p96 +F0.0 +sS'GCT' +p97 +F0.0 +sS'TGA' +p98 +F0.0 +sS'TTG' +p99 +F0.0 +sS'TCC' +p100 +F0.0 +sS'TGG' +p101 +F0.0 +sS'TCT' +p102 +F0.0 +ssS'TRINUC_TRANS_PROBS' +p103 +(dp104 +(S'TTA' +p105 +S'TAA' +p106 +tp107 +F0.0 +s(S'TGA' +p108 +S'TCA' +p109 +tp110 +F0.0 +s(S'GAA' +p111 +S'GCA' +p112 +tp113 +F0.0 +s(S'ACG' +p114 +S'AGG' +p115 +tp116 +F0.0 +s(g108 +S'TTA' +p117 +tp118 +F0.0 +s(S'AAG' +p119 +S'ATG' +p120 +tp121 +F0.0 +s(S'TCA' +p122 +S'TGA' +p123 +tp124 +F0.0 +s(S'GAC' +p125 +S'GCC' +p126 +tp127 +F0.0 +s(S'CTT' +p128 +S'CGT' +p129 +tp130 +F0.0 +s(S'GGC' +p131 +S'GTC' +p132 +tp133 +F0.0 +s(g111 +S'GTA' +p134 +tp135 +F0.0 +s(S'AGA' +p136 +S'ACA' +p137 +tp138 +F0.0 +s(S'GCG' +p139 +S'GTG' +p140 +tp141 +F0.0 +s(S'TAA' +p142 +S'TCA' +p143 +tp144 +F0.0 +s(S'CCT' +p145 +S'CAT' +p146 +tp147 +F0.0 +s(S'GAG' +p148 +S'GCG' +p149 +tp150 +F0.0 +s(S'ATT' +p151 +S'AGT' +p152 +tp153 +F0.0 +s(S'CGT' +p154 +S'CTT' +p155 +tp156 +F0.0 +s(S'CAT' +p157 +S'CGT' +p158 +tp159 +F1.0 +s(g139 +S'GAG' +p160 +tp161 +F0.0 +s(g111 +S'GGA' +p162 +tp163 +F0.0 +s(g131 +S'GAC' +p164 +tp165 +F0.0 +s(S'TTG' +p166 +S'TCG' +p167 +tp168 +F0.0 +s(S'ATA' +p169 +S'AGA' +p170 +tp171 +F0.0 +s(S'TGG' +p172 +S'TCG' +p173 +tp174 +F0.0 +s(S'GAT' +p175 +S'GCT' +p176 +tp177 +F0.0 +s(S'GGG' +p178 +S'GAG' +p179 +tp180 +F0.0 +s(S'AAA' +p181 +S'AGA' +p182 +tp183 +F0.0 +s(S'CTA' +p184 +S'CGA' +p185 +tp186 +F0.0 +s(S'ACC' +p187 +S'AGC' +p188 +tp189 +F0.0 +s(g139 +S'GGG' +p190 +tp191 +F0.0 +s(S'AAC' +p192 +S'AGC' +p193 +tp194 +F1.0 +s(S'GTA' +p195 +S'GCA' +p196 +tp197 +F0.0 +s(S'ACA' +p198 +S'AGA' +p199 +tp200 +F0.0 +s(S'GCA' +p201 +S'GTA' +p202 +tp203 +F0.0 +s(S'CCG' +p204 +S'CGG' +p205 +tp206 +F0.0 +s(S'TAT' +p207 +S'TTT' +p208 +tp209 +F0.0 +s(S'AGC' +p210 +S'ACC' +p211 +tp212 +F0.0 +s(g136 +S'ATA' +p213 +tp214 +F0.0 +s(S'CCA' +p215 +S'CGA' +p216 +tp217 +F0.0 +s(S'TGC' +p218 +S'TAC' +p219 +tp220 +F0.0 +s(g128 +S'CCT' +p221 +tp222 +F0.0 +s(S'ACT' +p223 +S'AGT' +p224 +tp225 +F0.0 +s(S'AGG' +p226 +S'ACG' +p227 +tp228 +F0.0 +s(S'CAC' +p229 +S'CCC' +p230 +tp231 +F0.0 +s(S'TAC' +p232 +S'TCC' +p233 +tp234 +F0.0 +s(g136 +S'AAA' +p235 +tp236 +F0.0 +s(S'CTG' +p237 +S'CCG' +p238 +tp239 +F0.0 +s(S'CAA' +p240 +S'CCA' +p241 +tp242 +F0.0 +s(g210 +S'ATC' +p243 +tp244 +F0.0 +s(g240 +S'CGA' +p245 +tp246 +F0.0 +s(S'AGT' +p247 +S'AAT' +p248 +tp249 +F0.0 +s(S'CAG' +p250 +S'CCG' +p251 +tp252 +F0.0 +s(g122 +S'TAA' +p253 +tp254 +F0.0 +s(g169 +S'ACA' +p255 +tp256 +F0.0 +s(S'TTC' +p257 +S'TCC' +p258 +tp259 +F0.0 +s(S'CTC' +p260 +S'CCC' +p261 +tp262 +F0.0 +s(g187 +S'AAC' +p263 +tp264 +F0.0 +s(g226 +S'ATG' +p265 +tp266 +F0.0 +s(S'ATC' +p267 +S'AGC' +p268 +tp269 +F0.0 +s(g175 +S'GGT' +p270 +tp271 +F0.0 +s(S'CGA' +p272 +S'CCA' +p273 +tp274 +F0.0 +s(g114 +S'ATG' +p275 +tp276 +F0.0 +s(g142 +S'TGA' +p277 +tp278 +F0.0 +s(g247 +S'ACT' +p279 +tp280 +F0.0 +s(S'GTC' +p281 +S'GCC' +p282 +tp283 +F0.0 +s(S'CGC' +p284 +S'CCC' +p285 +tp286 +F0.0 +s(g184 +S'CAA' +p287 +tp288 +F0.0 +s(S'GTT' +p289 +S'GCT' +p290 +tp291 +F0.0 +s(g125 +S'GGC' +p292 +tp293 +F0.0 +s(g151 +S'AAT' +p294 +tp295 +F0.0 +s(S'TCC' +p296 +S'TAC' +p297 +tp298 +F0.0 +s(g187 +S'ATC' +p299 +tp300 +F0.0 +s(g289 +S'GAT' +p301 +tp302 +F0.0 +s(g289 +S'GGT' +p303 +tp304 +F0.0 +s(g181 +S'ACA' +p305 +tp306 +F0.0 +s(g207 +S'TGT' +p307 +tp308 +F0.0 +s(S'AAC' +p309 +S'ATC' +p310 +tp311 +F0.0 +s(g198 +S'ATA' +p312 +tp313 +F0.0 +s(g148 +S'GGG' +p314 +tp315 +F0.0 +s(S'GTG' +p316 +S'GCG' +p317 +tp318 +F0.0 +s(g247 +S'ATT' +p319 +tp320 +F0.0 +s(g232 +S'TGC' +p321 +tp322 +F0.0 +s(S'TTT' +p323 +S'TAT' +p324 +tp325 +F0.0 +s(g215 +S'CTA' +p326 +tp327 +F0.0 +s(S'ATG' +p328 +S'AGG' +p329 +tp330 +F0.0 +s(S'TAG' +p331 +S'TCG' +p332 +tp333 +F0.0 +s(g175 +S'GTT' +p334 +tp335 +F0.0 +s(S'TGT' +p336 +S'TTT' +p337 +tp338 +F0.0 +s(g119 +S'ACG' +p339 +tp340 +F0.0 +s(g223 +S'ATT' +p341 +tp342 +F0.0 +s(g296 +S'TGC' +p343 +tp344 +F0.0 +s(g181 +S'ATA' +p345 +tp346 +F0.0 +s(g131 +S'GCC' +p347 +tp348 +F0.0 +s(S'GCC' +p349 +S'GAC' +p350 +tp351 +F0.0 +s(g267 +S'AAC' +p352 +tp353 +F0.0 +s(S'CAT' +p354 +S'CTT' +p355 +tp356 +F0.0 +s(g184 +S'CCA' +p357 +tp358 +F0.0 +s(S'TCT' +p359 +S'TGT' +p360 +tp361 +F0.0 +s(S'GGA' +p362 +S'GCA' +p363 +tp364 +F0.0 +s(S'TCG' +p365 +S'TGG' +p366 +tp367 +F0.0 +s(g195 +S'GAA' +p368 +tp369 +F0.0 +s(g250 +S'CTG' +p370 +tp371 +F0.0 +s(g328 +S'AAG' +p372 +tp373 +F0.0 +s(S'CCT' +p374 +S'CTT' +p375 +tp376 +F1.0 +s(g201 +S'GGA' +p377 +tp378 +F0.0 +s(S'CCC' +p379 +S'CTC' +p380 +tp381 +F0.0 +s(g362 +S'GAA' +p382 +tp383 +F0.0 +s(g125 +S'GTC' +p384 +tp385 +F0.0 +s(g105 +S'TCA' +p386 +tp387 +F0.0 +s(g323 +S'TGT' +p388 +tp389 +F0.0 +s(g379 +S'CGC' +p390 +tp391 +F0.0 +s(g267 +S'ACC' +p392 +tp393 +F0.0 +s(S'GCT' +p394 +S'GGT' +p395 +tp396 +F0.0 +s(g331 +S'TGG' +p397 +tp398 +F0.0 +s(g240 +S'CTA' +p399 +tp400 +F0.0 +s(g237 +S'CAG' +p401 +tp402 +F0.0 +s(g229 +S'CTC' +p403 +tp404 +F0.0 +s(g148 +S'GTG' +p405 +tp406 +F0.0 +s(S'GGT' +p407 +S'GCT' +p408 +tp409 +F0.0 +s(g218 +S'TCC' +p410 +tp411 +F0.0 +s(g328 +S'ACG' +p412 +tp413 +F0.0 +s(g204 +S'CAG' +p414 +tp415 +F0.0 +s(g178 +S'GTG' +p416 +tp417 +F0.0 +s(S'GCC' +p418 +S'GTC' +p419 +tp420 +F1.0 +s(g207 +S'TCT' +p421 +tp422 +F0.0 +s(g359 +S'TAT' +p423 +tp424 +F0.0 +s(g394 +S'GTT' +p425 +tp426 +F0.0 +s(S'AAT' +p427 +S'AGT' +p428 +tp429 +F0.0 +s(g260 +S'CAC' +p430 +tp431 +F0.0 +s(S'CGG' +p432 +S'CAG' +p433 +tp434 +F0.0 +s(g272 +S'CTA' +p435 +tp436 +F0.0 +s(g316 +S'GGG' +p437 +tp438 +F0.0 +s(g169 +S'AAA' +p439 +tp440 +F0.0 +s(g218 +S'TTC' +p441 +tp442 +F0.0 +s(g354 +S'CCT' +p443 +tp444 +F0.0 +s(g284 +S'CTC' +p445 +tp446 +F0.0 +s(g154 +S'CAT' +p447 +tp448 +F0.0 +s(g108 +S'TAA' +p449 +tp450 +F0.0 +s(g365 +S'TAG' +p451 +tp452 +F0.0 +s(g281 +S'GGC' +p453 +tp454 +F0.0 +s(g142 +S'TTA' +p455 +tp456 +F0.0 +s(g119 +S'AGG' +p457 +tp458 +F0.0 +s(g172 +S'TTG' +p459 +tp460 +F0.0 +s(g336 +S'TAT' +p461 +tp462 +F0.0 +s(g323 +S'TCT' +p463 +tp464 +F0.0 +s(g359 +S'TTT' +p465 +tp466 +F0.0 +s(g394 +S'GAT' +p467 +tp468 +F0.0 +s(g215 +S'CAA' +p469 +tp470 +F0.0 +s(g229 +S'CGC' +p471 +tp472 +F0.0 +s(g365 +S'TTG' +p473 +tp474 +F0.0 +s(g151 +S'ACT' +p475 +tp476 +F0.0 +s(g128 +S'CAT' +p477 +tp478 +F0.0 +s(g223 +S'AAT' +p479 +tp480 +F0.0 +s(g154 +S'CCT' +p481 +tp482 +F0.0 +s(S'AGC' +p483 +S'AAC' +p484 +tp485 +F1.0 +s(g166 +S'TGG' +p486 +tp487 +F0.0 +s(g145 +S'CGT' +p488 +tp489 +F0.0 +s(g281 +S'GAC' +p490 +tp491 +F0.0 +s(g250 +S'CGG' +p492 +tp493 +F0.0 +s(g296 +S'TTC' +p494 +tp495 +F0.0 +s(g427 +S'ACT' +p496 +tp497 +F0.0 +s(g105 +S'TGA' +p498 +tp499 +F0.0 +s(g379 +S'CAC' +p500 +tp501 +F0.0 +s(g195 +S'GGA' +p502 +tp503 +F0.0 +s(g172 +S'TAG' +p504 +tp505 +F0.0 +s(g331 +S'TTG' +p506 +tp507 +F0.0 +s(S'AGG' +p508 +S'AAG' +p509 +tp510 +F1.0 +s(g257 +S'TGC' +p511 +tp512 +F0.0 +s(g432 +S'CCG' +p513 +tp514 +F0.0 +s(g316 +S'GAG' +p515 +tp516 +F0.0 +s(g309 +S'ACC' +p517 +tp518 +F0.0 +s(g237 +S'CGG' +p519 +tp520 +F0.0 +s(g122 +S'TTA' +p521 +tp522 +F0.0 +s(g362 +S'GTA' +p523 +tp524 +F0.0 +s(g114 +S'AAG' +p525 +tp526 +F0.0 +s(g407 +S'GAT' +p527 +tp528 +F0.0 +s(g232 +S'TTC' +p529 +tp530 +F0.0 +s(g166 +S'TAG' +p531 +tp532 +F0.0 +s(g427 +S'ATT' +p533 +tp534 +F0.0 +s(g349 +S'GGC' +p535 +tp536 +F0.0 +s(g260 +S'CGC' +p537 +tp538 +F0.0 +s(g432 +S'CTG' +p539 +tp540 +F0.0 +s(g336 +S'TCT' +p541 +tp542 +F0.0 +s(g198 +S'AAA' +p543 +tp544 +F0.0 +s(g284 +S'CAC' +p545 +tp546 +F0.0 +s(g407 +S'GTT' +p547 +tp548 +F0.0 +s(g257 +S'TAC' +p549 +tp550 +F0.0 +s(g178 +S'GCG' +p551 +tp552 +F0.0 +s(g201 +S'GAA' +p553 +tp554 +F0.0 +s(g204 +S'CTG' +p555 +tp556 +F0.0 +s(g272 +S'CAA' +p557 +tp558 +F0.0 +ssS'AVG_MUT_RATE' +p559 +F0.0009251916468411313 +sS'INDEL_FREQ' +p560 +(dp561 +I1 +F0.9999999999999997 +ss. \ No newline at end of file