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Published 20 hours ago • verified publisher icon arangrhie

Using gff file with merfin ?

Open aureliendejode opened this issue 3 years ago • 3 comments

Hello,

I polished my assembly using arrow and I have a .gff file, but no .vcf. Is it possible to run Merfin using a .gff file ? Otherwise do you know a way to cenvert .ggf to .vcf ?

Thanks

aureliendejode avatar Jul 30 '21 14:07 aureliendejode

Hello @aureliendejode , I think there should be a way to convert your arrow's .gff to .vcf. Let me take a look at this. Feel free to share your .gff (or part of it) if you have it handy.

Thanks! Arang

arangrhie avatar Aug 10 '21 20:08 arangrhie

Hello,

Here is a part of the .gff file. Thanks for your help.

##gff-version 3 ##pacbio-variant-version 2.1 ##date Fri Jul 16 16:48:15 2021 ##feature-ontology http://song.cvs.sourceforge.net/checkout/song/ontology/sofa.obo?revision=1.12 ##source GenomicConsensus 2.3.3 ##source-commandline /sw/bioinfo/SMRT/7.0.1/rackham/install/smrtlink-release_7.0.1.66975/bundles/smrttools/install/smrttools-release_7.0.1.66768/private/pacbio/pythonpkgs/GenomicC onsensus/binwrap/../../../../../private/pacbio/pythonpkgs/GenomicConsensus/bin/variantCaller --skipUnrecognizedContigs -x 5 -q 20 -X120 -v -j 20 --algorithm=arrow -r /proj/snic202 0-6-155/canu_new_pacbio_all_third_lib-6-155/purge_dup/canu_purged.fa -o saxa.canu.10.gff -o saxa.canu.10.fastq -o saxa.canu.10.fasta saxa.canu.chunk9.xml ##source-alignment-file /crex/proj/snic2020-6-155/canu_new_pacbio_all_third_lib-6-155/arrow_grid_on_grid/My_installation/saxa.canu.chunk9.xml ##source-reference-file /proj/snic2020-6-155/canu_new_pacbio_all_third_lib-6-155/purge_dup/canu_purged.fa ##sequence-region tig00000029_1 1 230969 ##sequence-region tig00000115_1 1 45686 ##sequence-region tig00000314_1 1 81703 ##sequence-region tig00000498_1 1 136528 ##sequence-region tig00000519_1 1 340669 ##sequence-region tig00000648_1 1 40113 ##sequence-region tig00000730_1 1 21348 ##sequence-region tig00000738_1 1 62808 ##sequence-region tig00000887_1 1 27055 ##sequence-region tig00000978_1 1 46578 ##sequence-region tig00001002_1 1 614600 ##sequence-region tig00001077_1 1 17340 ##sequence-region tig00001225_1 1 1069669 ##sequence-region tig00001226_1 1 20953 ##sequence-region tig00001253_1 1 1034542 ##sequence-region tig00001260_1 1 181109 ##sequence-region tig00001401_1 1 426245 ##sequence-region tig00001441_1 1 32440 ##sequence-region tig00001512_1 1 89992 ##sequence-region tig00001518_1 1 147752 ##sequence-region tig00001544_1 1 55688 ##sequence-region tig00001681_1 1 704045 ##sequence-region tig00001696_1 1 332314 ##sequence-region tig00001707_1 1 150133 ##sequence-region tig00001718_1 1 172648 ##sequence-region tig00001803_1 1 117846 ##sequence-region tig00001887_1 1 32646 ##sequence-region tig00001980_1 1 315052 ##sequence-region tig00002030_1 1 25448 ##sequence-region tig00002092_1 1 25195 ##sequence-region tig00002158_1 1 194868 ##sequence-region tig00002381_1 1 213497 ##sequence-region tig00002406_1 1 153612 ##sequence-region tig00002418_1 1 652135 ##sequence-region tig00002548_1 1 786247 ##sequence-region tig00002567_1 1 22785 ##sequence-region tig00002584_1 1 193090 ##sequence-region tig00002597_1 1 197532 ##sequence-region tig00002672_1 1 109982 ##sequence-region tig00002723_1 1 16204 ##sequence-region tig00002724_1 1 267270 ##sequence-region tig00002728_1 1 49383 ##sequence-region tig00002811_1 1 28416 ##sequence-region tig00002909_1 1 44198 ##sequence-region tig00002918_1 1 236686 ##sequence-region tig00002938_1 1 743972 ##sequence-region tig00003000_1 1 56704 ##sequence-region tig00003080_1 1 407104 ##sequence-region tig00003092_1 1 578060 ##sequence-region tig00003141_1 1 95879 ##sequence-region tig00003187_1 1 21363 ##sequence-region tig00003330_1 1 202709 ##sequence-region tig00003441_1 1 653414 ##sequence-region tig00003510_1 1 11881 ##sequence-region tig00003633_1 1 15282 ##sequence-region tig00003729_1 1 461566 ##sequence-region tig00003799_1 1 536649 ##sequence-region tig00003801_1 1 590742 ##sequence-region tig00003827_1 1 40494 ##sequence-region tig00003928_1 1 498936 ##sequence-region tig00003931_1 1 174979 ##sequence-region tig00004008_1 1 93467 ##sequence-region tig00004082_1 1 261025 ##sequence-region tig00004239_1 1 352145 ##sequence-region tig00004245_1 1 148900 ##sequence-region tig00004257_1 1 433760 ##sequence-region tig00004353_1 1 291863 ##sequence-region tig00004364_1 1 41300 ##sequence-region tig00004374_1 1 303891 ##sequence-region tig00004391_1 1 70109 ##sequence-region tig00004417_1 1 65618 ##sequence-region tig00004429_1 1 189356 ##sequence-region tig00004520_1 1 27650 ##sequence-region tig00004618_1 1 477856 ##sequence-region tig00004631_1 1 284306 ##sequence-region tig00004738_1 1 101924 ##sequence-region tig00004810_1 1 422641 ##sequence-region tig00004851_1 1 454457 ##sequence-region tig00004856_1 1 176488 ##sequence-region tig00004937_1 1 269658 ##sequence-region tig00004981_1 1 30678 ##sequence-region tig00005013_1 1 150888 ##sequence-region tig00005016_1 1 197932 ##sequence-region tig00005067_1 1 210553 ##sequence-region tig00005224_1 1 354846 ##sequence-region tig00005244_1 1 56432 ##sequence-region tig00005341_1 1 71878 ##sequence-region tig00005386_1 1 91632 ##sequence-region tig00005565_1 1 326564 ##sequence-region tig00005568_1 1 289485 ##sequence-region tig00005587_1 1 79853 ##sequence-region tig00005681_1 1 82956 ##sequence-region tig00005701_1 1 162688 ##sequence-region tig00005716_1 1 20604 ##sequence-region tig00005726_1 1 35366 ##sequence-region tig00005735_1 1 97568 ##sequence-region tig00005776_1 1 21165 ##sequence-region tig00005790_1 1 328671 ##sequence-region tig00005875_1 1 7260 ##sequence-region tig00005893_1 1 22261 ##sequence-region tig00005896_1 1 241946 ##sequence-region tig00005941_1 1 104305 ##sequence-region tig00005987_1 1 21046 ##sequence-region tig00006040_1 1 16776 ##sequence-region tig00006052_1 1 108211 ##sequence-region tig00006071_1 1 100616 ##sequence-region tig00006156_1 1 223245 ##sequence-region tig00006216_1 1 24025 ##sequence-region tig00006416_1 1 280153 ##sequence-region tig00006512_1 1 71216 ##sequence-region tig00006518_1 1 125291 ##sequence-region tig00006553_1 1 60661 ##sequence-region tig00006604_1 1 85631 ##sequence-region tig00006628_1 1 65802 ##sequence-region tig00006668_1 1 345671 ##sequence-region tig00006687_1 1 308076 ##sequence-region tig00006697_1 1 242861 ##sequence-region tig00006804_1 1 199681 ##sequence-region tig00006901_1 1 249597 ##sequence-region tig00006913_1 1 225134 ##sequence-region tig00006941_1 1 297892 ##sequence-region tig00007064_1 1 131294 ##sequence-region tig00007069_1 1 272954 ##sequence-region tig00007105_1 1 251211 ##sequence-region tig00007173_1 1 73456 ##sequence-region tig00007178_1 1 48445 ##sequence-region tig00007290_1 1 21719 ##sequence-region tig00007312_1 1 247559 ##sequence-region tig00007343_1 1 276254 ##sequence-region tig00007367_1 1 48679 ##sequence-region tig00007401_1 1 213083 ##sequence-region tig00007459_1 1 24502 ##sequence-region tig00007477_1 1 31656 ##sequence-region tig00007510_1 1 97545 ##sequence-region tig00007531_1 1 210197 ##sequence-region tig00007560_1 1 15422 ##sequence-region tig00007703_1 1 114510 ##sequence-region tig00007764_1 1 300329 ##sequence-region tig00007807_1 1 15714 ##sequence-region tig00007829_1 1 79967 ##sequence-region tig00007837_1 1 77323 ##sequence-region tig00007913_1 1 179271 ##sequence-region tig00007922_1 1 277115 ##sequence-region tig00007934_1 1 236027 ##sequence-region tig00007979_1 1 134846 ##sequence-region tig00007982_1 1 29730 ##sequence-region tig00008016_1 1 201764 ##sequence-region tig00008038_1 1 155227 ##sequence-region tig00008082_1 1 258559 ##sequence-region tig00008099_1 1 96255 ##sequence-region tig00008117_1 1 48321 ##sequence-region tig00008132_1 1 151786 ##sequence-region tig00008144_1 1 36322 ##sequence-region tig00008177_1 1 139440 ##sequence-region tig00008203_1 1 36157 ##sequence-region tig00008218_1 1 246842 ##sequence-region tig00008261_1 1 29496 ##sequence-region tig00008410_1 1 86017 ##sequence-region tig00008449_1 1 29077 ##sequence-region tig00008462_1 1 31304 ##sequence-region tig00008509_1 1 102313 ##sequence-region tig00008554_1 1 20059 ##sequence-region tig00008594_1 1 161187 ##sequence-region tig00008599_1 1 163291 ##sequence-region tig00008613_1 1 22564 ##sequence-region tig00008626_1 1 217193 ##sequence-region tig00008685_1 1 206183 ##sequence-region tig00008787_1 1 37445 ##sequence-region tig00008790_1 1 82357 ##sequence-region tig00008817_1 1 17108 ##sequence-region tig00008864_1 1 57454 ##sequence-region tig00008933_1 1 145529 ##sequence-region tig00008954_1 1 29194 ##sequence-region tig00009035_1 1 134432 ##sequence-region tig00009137_1 1 27282 ##sequence-region tig00009146_1 1 50657 ##sequence-region tig00009186_1 1 47884 ##sequence-region tig00009199_1 1 69650 ##sequence-region tig00009238_1 1 194100 ##sequence-region tig00009252_1 1 167225 ##sequence-region tig00009282_1 1 170718 ##sequence-region tig00009325_1 1 22980 ##sequence-region tig00009386_1 1 17361 ##sequence-region tig00009398_1 1 185273 ##sequence-region tig00009405_1 1 19385 ##sequence-region tig00009418_1 1 54647 ##sequence-region tig00009420_1 1 114256 ##sequence-region tig00009452_1 1 137830 ##sequence-region tig00009520_1 1 152987 ##sequence-region tig00009532_1 1 9925 ##sequence-region tig00009549_1 1 86218 ##sequence-region tig00009563_1 1 7596 ##sequence-region tig00009586_1 1 42703 ##sequence-region tig00009602_1 1 72111 ##sequence-region tig00009603_1 1 60703 ##sequence-region tig00009631_1 1 127575 ##sequence-region tig00009664_1 1 98675 ##sequence-region tig00009672_1 1 37680 ##sequence-region tig00009676_1 1 76927 ##sequence-region tig00009713_1 1 22739 ##sequence-region tig00009731_1 1 24407 ##sequence-region tig00009779_1 1 170227 ##sequence-region tig00009792_1 1 39626 ##sequence-region tig00009797_1 1 126008 ##sequence-region tig00009814_1 1 17800 ##sequence-region tig00009823_1 1 179950 ##sequence-region tig00009914_1 1 21886 ##sequence-region tig00010007_1 1 41847 ##sequence-region tig00010014_1 1 106586 ##sequence-region tig00010024_1 1 160507 ##sequence-region tig00010057_1 1 133900 ##sequence-region tig00010117_1 1 18556 ##sequence-region tig00010151_1 1 59540 ##sequence-region tig00010184_1 1 124717 ##sequence-region tig00010202_1 1 117718 ##sequence-region tig00010257_1 1 49708 ##sequence-region tig00010261_1 1 31357 ##sequence-region tig00010406_1 1 165103 ##sequence-region tig00010427_1 1 174536 ##sequence-region tig00010489_1 1 169658 ##sequence-region tig00010497_1 1 91060 ##sequence-region tig00010547_1 1 88441 ##sequence-region tig00010589_1 1 105153 ##sequence-region tig00010644_1 1 15231 ##sequence-region tig00010682_1 1 113214 ##sequence-region tig00010709_1 1 30089 ##sequence-region tig00010718_1 1 139762 ##sequence-region tig00010762_1 1 45452 ##sequence-region tig00010804_1 1 42957 ##sequence-region tig00010826_1 1 87047 ##sequence-region tig00010829_1 1 62439 ##sequence-region tig00010878_1 1 123882 ##sequence-region tig00010949_1 1 39082 ##sequence-region tig00011006_1 1 145110 ##sequence-region tig00011043_1 1 23346 ##sequence-region tig00011092_1 1 18818 ##sequence-region tig00011179_1 1 35596 ##sequence-region tig00011254_1 1 94684 ##sequence-region tig00011331_1 1 83855 ##sequence-region tig00011337_1 1 143281 ##sequence-region tig00011449_1 1 129688 ##sequence-region tig00011454_1 1 25993 ##sequence-region tig00011460_1 1 16085 ##sequence-region tig00011473_1 1 75733 ##sequence-region tig00011489_1 1 61696 ##sequence-region tig00011544_1 1 68502 ##sequence-region tig00011553_1 1 53449 ##sequence-region tig00011700_1 1 131294 ##sequence-region tig00011712_1 1 108679 ##sequence-region tig00011740_1 1 23147 ##sequence-region tig00011799_1 1 32808 ##sequence-region tig00011857_1 1 78566 ##sequence-region tig00011873_1 1 35865 ##sequence-region tig00011874_1 1 59059 ##sequence-region tig00011909_1 1 55160 ##sequence-region tig00011937_1 1 70427 ##sequence-region tig00011952_1 1 54366 ##sequence-region tig00012073_1 1 106265 ##sequence-region tig00012128_1 1 76245 ##sequence-region tig00012274_1 1 66512 ##sequence-region tig00012286_1 1 29549 ##sequence-region tig00012505_1 1 45837 ##sequence-region tig00012537_1 1 30980 ##sequence-region tig00012548_1 1 52179 ##sequence-region tig00012557_1 1 16526 ##sequence-region tig00012563_1 1 94655 ##sequence-region tig00012687_1 1 37918 ##sequence-region tig00012766_1 1 18884 ##sequence-region tig00012789_1 1 3518 ##sequence-region tig00012803_1 1 27778 ##sequence-region tig00012811_1 1 24657 ##sequence-region tig00012823_1 1 51388 ##sequence-region tig00012828_1 1 15359 ##sequence-region tig00012861_1 1 88032 ##sequence-region tig00012863_1 1 38477 ##sequence-region tig00012891_1 1 29345 ##sequence-region tig00012919_1 1 32155 ##sequence-region tig00012927_1 1 60064 ##sequence-region tig00012940_1 1 61397 ##sequence-region tig00012942_1 1 74723 ##sequence-region tig00013000_1 1 19092 ##sequence-region tig00013014_1 1 27720 ##sequence-region tig00013092_1 1 84732 ##sequence-region tig00013100_1 1 41854 ##sequence-region tig00013104_1 1 74859 ##sequence-region tig00013159_1 1 35270 ##sequence-region tig00013173_1 1 15588 ##sequence-region tig00013215_1 1 46448 ##sequence-region tig00013234_1 1 26626 ##sequence-region tig00013235_1 1 51544 ##sequence-region tig00013262_1 1 17878 ##sequence-region tig00013266_1 1 17432 ##sequence-region tig00013278_1 1 36588 ##sequence-region tig00013381_1 1 55564 ##sequence-region tig00013389_1 1 47468 ##sequence-region tig00013408_1 1 33014 ##sequence-region tig00013486_1 1 32384 ##sequence-region tig00013553_1 1 47097 ##sequence-region tig00013569_1 1 13769 ##sequence-region tig00013574_1 1 104240 ##sequence-region tig00013638_1 1 22499 ##sequence-region tig00013706_1 1 34988 ##sequence-region tig00013756_1 1 37978 ##sequence-region tig00013797_1 1 78540 ##sequence-region tig00013830_1 1 23399 ##sequence-region tig00013843_1 1 32116 ##sequence-region tig00013889_1 1 51805 ##sequence-region tig00013929_1 1 25657 ##sequence-region tig00013948_1 1 34159 ##sequence-region tig00013979_1 1 45238 ##sequence-region tig00014002_1 1 42409 ##sequence-region tig00014009_1 1 52664 ##sequence-region tig00014027_1 1 61190 ##sequence-region tig00014083_1 1 50474 ##sequence-region tig00014086_1 1 41324 ##sequence-region tig00014123_1 1 21511 ##sequence-region tig00014127_1 1 20257 ##sequence-region tig00014233_1 1 23592 ##sequence-region tig00014274_1 1 42319 ##sequence-region tig00014299_1 1 20719 ##sequence-region tig00014315_1 1 37257 ##sequence-region tig00014414_1 1 47696 ##sequence-region tig00014438_1 1 36715 ##sequence-region tig00014439_1 1 44928 ##sequence-region tig00014455_1 1 43014 ##sequence-region tig00014470_1 1 53912 ##sequence-region tig00014529_1 1 14737 ##sequence-region tig00014548_1 1 22623 ##sequence-region tig00014677_1 1 68084 ##sequence-region tig00014775_1 1 47012 ##sequence-region tig00014816_1 1 36938 ##sequence-region tig00014841_1 1 25774 ##sequence-region tig00014848_1 1 39947 ##sequence-region tig00014861_1 1 19880 ##sequence-region tig00014862_1 1 50794 ##sequence-region tig00014877_1 1 58623 ##sequence-region tig00014888_1 1 29018 ##sequence-region tig00014989_1 1 16677 ##sequence-region tig00015020_1 1 15949 ##sequence-region tig00015074_1 1 26135 ##sequence-region tig00015096_1 1 53702 ##sequence-region tig00015149_1 1 30957 ##sequence-region tig00015179_1 1 25010 ##sequence-region tig00015221_1 1 33735 ##sequence-region tig00015236_1 1 18147 ##sequence-region tig00015247_1 1 13169 ##sequence-region tig00015259_1 1 33881 ##sequence-region tig00015264_1 1 34692 ##sequence-region tig00015289_1 1 28654 ##sequence-region tig00015291_1 1 16261 ##sequence-region tig00015292_1 1 17520 ##sequence-region tig00015327_1 1 21921 ##sequence-region tig00015336_1 1 12331 ##sequence-region tig00015372_1 1 13674 ##sequence-region tig00015408_1 1 52619 ##sequence-region tig00015516_1 1 22352 ##sequence-region tig00015567_1 1 26320 ##sequence-region tig00015695_1 1 17059 ##sequence-region tig00015701_1 1 35076 ##sequence-region tig00015737_1 1 19197 ##sequence-region tig00015771_1 1 33159 ##sequence-region tig00015820_1 1 13513 ##sequence-region tig00015893_1 1 14830 ##sequence-region tig00015917_1 1 16549 ##sequence-region tig00015944_1 1 19862 ##sequence-region tig00015961_1 1 10454 ##sequence-region tig00015972_1 1 21989 ##sequence-region tig00016004_1 1 17677 ##sequence-region tig00016140_1 1 4169 ##sequence-region tig00016184_1 1 19470 ##sequence-region tig00016287_1 1 21551 ##sequence-region tig00016296_1 1 18131 ##sequence-region tig00016308_1 1 10780 ##sequence-region tig00016330_1 1 26903 ##sequence-region tig00016331_1 1 17645 ##sequence-region tig00016343_1 1 24748 ##sequence-region tig00016387_1 1 6379 ##sequence-region tig00016405_1 1 25586 ##sequence-region tig00016424_1 1 16172 ##sequence-region tig00016426_1 1 16126 ##sequence-region tig00016691_1 1 34369 ##sequence-region tig00016703_1 1 14543 ##sequence-region tig00016733_1 1 29866 ##sequence-region tig00016748_1 1 23647 ##sequence-region tig00016834_1 1 63428 ##sequence-region tig00016842_1 1 1353 ##sequence-region tig00016855_1 1 8407 ##sequence-region tig00016870_1 1 24660 ##sequence-region tig00016888_1 1 57106 ##sequence-region tig00016944_1 1 15686 ##sequence-region tig00016959_1 1 7001 ##sequence-region tig00017039_1 1 9021 ##sequence-region tig00017104_1 1 11650 ##sequence-region tig00017165_1 1 18707 ##sequence-region tig00017171_1 1 31806 ##sequence-region tig00017199_1 1 17975 ##sequence-region tig00017232_1 1 60115 ##sequence-region tig00017362_1 1 14335 ##sequence-region tig00017383_1 1 19683 ##sequence-region tig00017401_1 1 34302 ##sequence-region tig00017503_1 1 11592 ##sequence-region tig00017613_1 1 17772 ##sequence-region tig00017707_1 1 24032 ##sequence-region tig00017798_1 1 30020 ##sequence-region tig00017817_1 1 25338 ##sequence-region tig00017925_1 1 64673 ##sequence-region tig00017927_1 1 19527 ##sequence-region tig00018004_1 1 49352 ##sequence-region tig00018051_1 1 7427 ##sequence-region tig00018086_1 1 19997 ##sequence-region tig00018112_1 1 2634 ##sequence-region tig00018150_1 1 44452 ##sequence-region tig00018155_1 1 2863 ##sequence-region tig00018202_1 1 10492 ##sequence-region tig00018250_1 1 18038 ##sequence-region tig00018252_1 1 15079 ##sequence-region tig00018398_1 1 8665 ##sequence-region tig00018403_1 1 27397 ##sequence-region tig00018568_1 1 11245 ##sequence-region tig00018598_1 1 15321 ##sequence-region tig00018607_1 1 17251 ##sequence-region tig00018620_1 1 6211 ##sequence-region tig00018645_1 1 14793 ##sequence-region tig00018697_1 1 20149 ##sequence-region tig00018792_1 1 10655 ##sequence-region tig00018857_1 1 18691 ##sequence-region tig00018866_1 1 11601 ##sequence-region tig00018891_1 1 7793 ##sequence-region tig00018921_1 1 12933 ##sequence-region tig00018928_1 1 18405 ##sequence-region tig00018944_1 1 12390 ##sequence-region tig00018999_1 1 9756 ##sequence-region tig00019027_1 1 15560 ##sequence-region tig00019048_1 1 5027 ##sequence-region tig00019080_1 1 20898 ##sequence-region tig00019112_1 1 16983 ##sequence-region tig00019307_1 1 11529 ##sequence-region tig00019319_1 1 12767 ##sequence-region tig00019439_1 1 25886 ##sequence-region tig00019488_1 1 12665 ##sequence-region tig00019531_1 1 20301 ##sequence-region tig00019579_1 1 15665 ##sequence-region tig00019582_1 1 7368 ##sequence-region tig00019708_1 1 40686 ##sequence-region tig00019781_1 1 30377 ##sequence-region tig00019822_1 1 50160 ##sequence-region tig00019851_1 1 18290 ##sequence-region tig00019875_1 1 38970 ##sequence-region tig00019981_1 1 13287 ##sequence-region tig00019984_1 1 10080 ##sequence-region tig00020018_1 1 15459 ##sequence-region tig00020045_1 1 44981 ##sequence-region tig00020208_1 1 33657 ##sequence-region tig00020217_1 1 39398 ##sequence-region tig00020309_1 1 9668 ##sequence-region tig00020407_1 1 5543 ##sequence-region tig00020415_1 1 28077 ##sequence-region tig00020475_1 1 17500 ##sequence-region tig00020641_1 1 15097 ##sequence-region tig00020906_1 1 16323 ##sequence-region tig00020925_1 1 13411 ##sequence-region tig00021165_1 1 12353 ##sequence-region tig00021188_1 1 14408 ##sequence-region tig00021192_1 1 3996 ##sequence-region tig00021297_1 1 19229 ##sequence-region tig00021357_1 1 11402 ##sequence-region tig00021395_1 1 48890 ##sequence-region tig00021463_1 1 22991 ##sequence-region tig00021621_1 1 1494 ##sequence-region tig00021633_1 1 13874 ##sequence-region tig00021665_1 1 18924 ##sequence-region tig00021698_1 1 13387 ##sequence-region tig00021763_1 1 18570 ##sequence-region tig00021955_1 1 7151 ##sequence-region tig00021980_1 1 19076 ##sequence-region tig00022018_1 1 2392 ##sequence-region tig00022030_1 1 4935 ##sequence-region tig00022034_1 1 14347 ##sequence-region tig00022183_1 1 4712 ##sequence-region tig00022274_1 1 18250 ##sequence-region tig00022361_1 1 3181 ##sequence-region tig00022364_1 1 12916 ##sequence-region tig00022454_1 1 4346 ##sequence-region tig00022467_1 1 23816 ##sequence-region tig00022561_1 1 11717 ##sequence-region tig00022655_1 1 16903 ##sequence-region tig00022667_1 1 2690 ##sequence-region tig00022802_1 1 11104 ##sequence-region tig00022806_1 1 6118 ##sequence-region tig00022819_1 1 14925 ##sequence-region tig00022838_1 1 7778 ##sequence-region tig00022862_1 1 12765 ##sequence-region tig00022886_1 1 3396 ##sequence-region tig00022952_1 1 14579 ##sequence-region tig00022956_1 1 16741 ##sequence-region tig00022975_1 1 13025 ##sequence-region tig00023091_1 1 8261 ##sequence-region tig00023101_1 1 14648 ##sequence-region tig00023167_1 1 11124 ##sequence-region tig00023223_1 1 20645 ##sequence-region tig00023268_1 1 3355 ##sequence-region tig00023294_1 1 5400 ##sequence-region tig00023295_1 1 3692 ##sequence-region tig00023409_1 1 8829 ##sequence-region tig00023453_1 1 9570 ##sequence-region tig00023544_1 1 1106 ##sequence-region tig00023553_1 1 3816 ##sequence-region tig00023560_1 1 11760 ##sequence-region tig00023561_1 1 28367 ##sequence-region tig00023568_1 1 1123 ##sequence-region tig00023659_1 1 5582 ##sequence-region tig00023727_1 1 1510 ##sequence-region tig00023731_1 1 19764 ##sequence-region tig00023793_1 1 4167 ##sequence-region tig00023813_1 1 7634 ##sequence-region tig00023934_1 1 12045 ##sequence-region tig00023943_1 1 6540 ##sequence-region tig00024000_1 1 13149 ##sequence-region tig00024075_1 1 18057 ##sequence-region tig00024093_1 1 2245 ##sequence-region tig00024219_1 1 19339 ##sequence-region tig00024383_1 1 23161 ##sequence-region tig00024474_1 1 15177 ##sequence-region tig00024587_1 1 3933 ##sequence-region tig00024619_1 1 16690 ##sequence-region tig00024623_1 1 9089 ##sequence-region tig00024753_1 1 14964 ##sequence-region tig00024870_1 1 9194 ##sequence-region tig00024927_1 1 13498 ##sequence-region tig00024942_1 1 18379 ##sequence-region tig00024987_1 1 1240 ##sequence-region tig00025027_1 1 5153 ##sequence-region tig00025193_1 1 15895 ##sequence-region tig00025236_1 1 87343 ##sequence-region tig00025350_1 1 6959 ##sequence-region tig00025403_1 1 26723 ##sequence-region tig00025426_1 1 5265 ##sequence-region tig00025440_1 1 5739 ##sequence-region tig00025510_1 1 19392 ##sequence-region tig00025615_1 1 9519 ##sequence-region tig00025632_1 1 12090 ##sequence-region tig00025804_1 1 16425 ##sequence-region tig00026068_1 1 12604 ##sequence-region tig00026120_1 1 1811 ##sequence-region tig00026496_1 1 4395 ##sequence-region tig00026768_1 1 2744 ##sequence-region tig00026869_1 1 10261 ##sequence-region tig00026904_1 1 2089 ##sequence-region tig00026974_1 1 11459 ##sequence-region tig00027034_1 1 8946 ##sequence-region tig00027067_1 1 12126 ##sequence-region tig00027388_1 1 8026 ##sequence-region tig00027456_1 1 3005 ##sequence-region tig00059793_1 1 867813 ##sequence-region tig00059802_1 1 21202 ##sequence-region tig00059822_1 1 77504 ##sequence-region tig00059833_1 1 27194 ##sequence-region tig00059899_1 1 43530 ##sequence-region tig00059927_1 1 54758 ##sequence-region tig00059988_1 1 682827 ##sequence-region tig00060057_1 1 1532017 ##sequence-region tig00060071_1 1 926759 ##sequence-region tig00060130_1 1 499427 ##sequence-region tig00060143_1 1 64172 ##sequence-region tig00060151_1 1 353758 ##sequence-region tig00060211_1 1 83671 ##sequence-region tig00060220_1 1 11254 ##sequence-region tig00060221_1 1 1697 ##sequence-region tig00060285_1 1 1767871 ##sequence-region tig00060294_1 1 757178 ##sequence-region tig00060337_1 1 340016 ##sequence-region tig00060377_1 1 526983 ##sequence-region tig00060384_1 1 413057 ##sequence-region tig00060442_1 1 119291 ##sequence-region tig00060472_1 1 377183 ##sequence-region tig00060475_1 1 69424 ##sequence-region tig00060491_1 1 536331 ##sequence-region tig00060514_1 1 953316 ##sequence-region tig00060559_1 1 16392 ##sequence-region tig00060573_1 1 12204 ##sequence-region tig00060591_1 1 15188 ##sequence-region tig00060595_1 1 93290 ##sequence-region tig00060676_1 1 320227 ##sequence-region tig00060697_1 1 68834 ##sequence-region tig00060709_1 1 324696 ##sequence-region tig00060713_1 1 25047 ##sequence-region tig00060725_1 1 142889 ##sequence-region tig00060826_1 1 84925 ##sequence-region tig00060891_1 1 506298 ##sequence-region tig00060922_1 1 109779 ##sequence-region tig00060938_1 1 311695 ##sequence-region tig00060939_1 1 16934 ##sequence-region tig00061059_1 1 370327 ##sequence-region tig00061105_1 1 261706 ##sequence-region tig00061111_1 1 90166 ##sequence-region tig00061119_1 1 335304 ##sequence-region tig00061127_1 1 103182 ##sequence-region tig00061136_1 1 436477 ##sequence-region tig00061190_1 1 10949 ##sequence-region tig00061203_1 1 183303 ##sequence-region tig00061216_1 1 41596 ##sequence-region tig00061229_1 1 158420 ##sequence-region tig00061252_1 1 1291364 ##sequence-region tig00061278_1 1 10844 ##sequence-region tig00061281_1 1 384452 ##sequence-region tig00061282_1 1 616785 ##sequence-region tig00061313_1 1 186661 ##sequence-region tig00061322_1 1 13067 ##sequence-region tig00061365_1 1 166807 ##sequence-region tig00061371_1 1 370552 ##sequence-region tig00061372_1 1 389596 ##sequence-region tig00061379_1 1 16003 ##sequence-region tig00061415_1 1 26472 ##sequence-region tig00061424_1 1 359523 ##sequence-region tig00061467_1 1 119351 ##sequence-region tig00061479_1 1 387467 ##sequence-region tig00061497_1 1 559700 ##sequence-region tig00061526_1 1 477702 ##sequence-region tig00061565_1 1 132505 ##sequence-region tig00061583_1 1 66214 ##sequence-region tig00061596_1 1 716763 ##sequence-region tig00061597_1 1 272139 ##sequence-region tig00061657_1 1 79201 ##sequence-region tig00061690_1 1 67573 ##sequence-region tig00061704_1 1 559075 ##sequence-region tig00061774_1 1 52161 ##sequence-region tig00061775_1 1 240366 ##sequence-region tig00061812_1 1 98442 ##sequence-region tig00061883_1 1 14006 ##sequence-region tig00061924_1 1 43738 ##sequence-region tig00061937_1 1 398516 ##sequence-region tig00061982_1 1 136887 ##sequence-region tig00061983_1 1 6554 ##sequence-region tig00062016_1 1 839470 ##sequence-region tig00062073_1 1 154645 ##sequence-region tig00062094_1 1 397271 ##sequence-region tig00062100_1 1 449949 ##sequence-region tig00062158_1 1 64961 ##sequence-region tig00062160_1 1 14130 ##sequence-region tig00062186_1 1 4732 ##sequence-region tig00062234_1 1 588200 ##sequence-region tig00062251_1 1 404312 ##sequence-region tig00062316_1 1 264995 ##sequence-region tig00062451_1 1 487053 ##sequence-region tig00062456_1 1 190301 ##sequence-region tig00062498_1 1 171976 ##sequence-region tig00062537_1 1 121017 ##sequence-region tig00062640_1 1 96556 ##sequence-region tig00062731_1 1 257810 ##sequence-region tig00062744_1 1 92068 ##sequence-region tig00062764_1 1 305466 ##sequence-region tig00062811_1 1 218120 ##sequence-region tig00062842_1 1 28722 ##sequence-region tig00062849_1 1 15787 ##sequence-region tig00062850_1 1 286560 ##sequence-region tig00062879_1 1 99827 ##sequence-region tig00062915_1 1 129421 ##sequence-region tig00063048_1 1 206144 ##sequence-region tig00063133_1 1 11046 ##sequence-region tig00063138_1 1 519761 ##sequence-region tig00063225_1 1 110871 ##sequence-region tig00063234_1 1 297553 ##sequence-region tig00063353_1 1 6741 ##sequence-region tig00063355_1 1 31659 ##sequence-region tig00063359_1 1 67498 ##sequence-region tig00063396_1 1 156202 ##sequence-region tig00063417_1 1 44452 ##sequence-region tig00063475_1 1 178126 ##sequence-region tig00063485_1 1 20346 ##sequence-region tig00063492_1 1 447279 ##sequence-region tig00063513_1 1 122833 ##sequence-region tig00063526_1 1 9927 ##sequence-region tig00063608_1 1 122118 ##sequence-region tig00063776_1 1 19700 ##sequence-region tig00063785_1 1 316465 ##sequence-region tig00063786_1 1 13618 ##sequence-region tig00063803_1 1 88685 ##sequence-region tig00063869_1 1 71087 ##sequence-region tig00063905_1 1 252346 ##sequence-region tig00063922_1 1 11838 ##sequence-region tig00063929_1 1 228211 ##sequence-region tig00063933_1 1 62242 ##sequence-region tig00063940_1 1 15842 ##sequence-region tig00063972_1 1 127213 ##sequence-region tig00064054_1 1 120880 ##sequence-region tig00064119_1 1 11346 ##sequence-region tig00064138_1 1 112107 ##sequence-region tig00064173_1 1 13763 ##sequence-region tig00064208_1 1 183932 ##sequence-region tig00064297_1 1 58536 ##sequence-region tig00064304_1 1 220806 ##sequence-region tig00064307_1 1 231567 ##sequence-region tig00064331_1 1 188138 ##sequence-region tig00064394_1 1 10249 ##sequence-region tig00064429_1 1 75508 ##sequence-region tig00064442_1 1 376725 ##sequence-region tig00064453_1 1 24118 ##sequence-region tig00064462_1 1 35767 ##sequence-region tig00064491_1 1 21769 ##sequence-region tig00064552_1 1 12574 ##sequence-region tig00064667_1 1 24457 ##sequence-region tig00064674_1 1 28170 ##sequence-region tig00064784_1 1 40993 ##sequence-region tig00065023_1 1 80728 ##sequence-region tig00065134_1 1 141218 ##sequence-region tig00065145_1 1 158074 ##sequence-region tig00065200_1 1 176710 ##sequence-region tig00065250_1 1 81054 ##sequence-region tig00065256_1 1 56206 ##sequence-region tig00065272_1 1 13299 ##sequence-region tig00065327_1 1 111574 ##sequence-region tig00065372_1 1 51251 ##sequence-region tig00065393_1 1 100187 ##sequence-region tig00065431_1 1 57872 ##sequence-region tig00065445_1 1 30315 ##sequence-region tig00065462_1 1 13981 ##sequence-region tig00065478_1 1 226464 ##sequence-region tig00065512_1 1 146889 ##sequence-region tig00065534_1 1 73486 ##sequence-region tig00065554_1 1 107634 ##sequence-region tig00065576_1 1 116058 ##sequence-region tig00065636_1 1 38408 ##sequence-region tig00065637_1 1 5945 ##sequence-region tig00065639_1 1 8470 ##sequence-region tig00065658_1 1 116853 ##sequence-region tig00065684_1 1 141071 ##sequence-region tig00065719_1 1 30613 ##sequence-region tig00065721_1 1 1881 ##sequence-region tig00065731_1 1 33275 ##sequence-region tig00065798_1 1 63615 ##sequence-region tig00065886_1 1 5784 ##sequence-region tig00065956_1 1 72695 ##sequence-region tig00065992_1 1 3584 ##sequence-region tig00066054_1 1 8653 ##sequence-region tig00066182_1 1 23832 ##sequence-region tig00066217_1 1 43350 ##sequence-region tig00066220_1 1 7932 ##sequence-region tig00066235_1 1 9429 ##sequence-region tig00066247_1 1 40903 ##sequence-region tig00066262_1 1 2531 ##sequence-region tig00066264_1 1 10430 ##sequence-region tig00066267_1 1 15516 ##sequence-region tig00066307_1 1 4454 ##sequence-region tig00066322_1 1 20495 ##sequence-region tig00066378_1 1 14170 ##sequence-region tig00066409_1 1 11934 ##sequence-region tig00066442_1 1 12444 ##sequence-region tig00066518_1 1 22190 ##sequence-region tig00066556_1 1 11994 ##sequence-region tig00066652_1 1 10659 ##sequence-region tig00066663_1 1 12223 ##sequence-region tig00066730_1 1 2939 ##sequence-region tig00066876_1 1 2309 ##sequence-region tig00066887_1 1 2016 ##sequence-region tig00066929_1 1 17226 ##sequence-region tig00066941_1 1 1657 ##sequence-region tig00066952_1 1 1269 ##sequence-region tig00066957_1 1 10105 ##sequence-region tig00067010_1 1 1942 ##sequence-region tig00067017_1 1 9310 ##sequence-region tig00067023_1 1 3070 ##sequence-region tig00067055_1 1 3244 ##sequence-region tig00067078_1 1 8180 tig00000029_1 . insertion 262 262 . . . reference=.;variantSeq=C;coverage=26;confidence=93 tig00000029_1 . deletion 429 429 . . . reference=T;variantSeq=.;coverage=27;confidence=43 tig00000029_1 . insertion 451 451 . . . reference=.;variantSeq=T;coverage=27;confidence=33 tig00000029_1 . insertion 1193 1193 . . . reference=.;variantSeq=G;coverage=31;confidence=88 tig00000029_1 . insertion 1921 1921 . . . reference=.;variantSeq=GAGAGA;coverage=53;confidence=93 tig00000029_1 . insertion 2759 2759 . . . reference=.;variantSeq=A;coverage=56;confidence=93 tig00000029_1 . insertion 2950 2950 . . . reference=.;variantSeq=T;coverage=58;confidence=83 tig00000029_1 . substitution 3480 3480 . . . reference=A;variantSeq=G;coverage=51;confidence=93 tig00000029_1 . substitution 3615 3615 . . . reference=T;variantSeq=A;coverage=52;confidence=93 tig00000029_1 . insertion 4280 4280 . . . reference=.;variantSeq=CA;coverage=55;confidence=93 tig00000029_1 . deletion 5636 5636 . . . reference=A;variantSeq=.;coverage=54;confidence=93 tig00000029_1 . substitution 5640 5640 . . . reference=G;variantSeq=A;coverage=55;confidence=93 tig00000029_1 . insertion 6294 6294 . . . reference=.;variantSeq=CCC;coverage=50;confidence=20 tig00000029_1 . deletion 12134 12135 . . . reference=AC;variantSeq=.;coverage=89;confidence=93 tig00000029_1 . substitution 14603 14603 . . . reference=G;variantSeq=C;coverage=50;confidence=93 tig00000029_1 . insertion 14615 14615 . . . reference=.;variantSeq=AGAGAGAGAGAGAGAGAG;coverage=49;confidence=93 tig00000029_1 . insertion 16475 16475 . . . reference=.;variantSeq=GT;coverage=66;confidence=93 tig00000029_1 . insertion 17757 17757 . . . reference=.;variantSeq=AC;coverage=68;confidence=93 tig00000029_1 . insertion 17860 17860 . . . reference=.;variantSeq=CACA;coverage=68;confidence=93 tig00000029_1 . insertion 18758 18758 . . . reference=.;variantSeq=AC;coverage=56;confidence=93 tig00000029_1 . insertion 20146 20146 . . . reference=.;variantSeq=G;coverage=65;confidence=93 tig00000029_1 . deletion 20511 20512 . . . reference=GT;variantSeq=.;coverage=54;confidence=93 tig00000029_1 . insertion 20847 20847 . . . reference=.;variantSeq=CCC;coverage=47;confidence=22 tig00000029_1 . deletion 20882 20882 . . . reference=C;variantSeq=.;coverage=46;confidence=27 tig00000029_1 . insertion 21207 21207 . . . reference=.;variantSeq=T;coverage=47;confidence=93 tig00000029_1 . insertion 21509 21509 . . . reference=.;variantSeq=GTGT;coverage=47;confidence=93 tig00000029_1 . insertion 21768 21768 . . . reference=.;variantSeq=C;coverage=48;confidence=93 tig00000029_1 . insertion 21912 21912 . . . reference=.;variantSeq=A;coverage=45;confidence=93 tig00000029_1 . insertion 22570 22570 . . . reference=.;variantSeq=GA;coverage=49;confidence=93 tig00000029_1 . insertion 24233 24233 . . . reference=.;variantSeq=A;coverage=93;confidence=93 tig00000029_1 . substitution 24244 24244 . . . reference=C;variantSeq=A;coverage=95;confidence=93 tig00000029_1 . substitution 24257 24257 . . . reference=C;variantSeq=A;coverage=95;confidence=71 tig00000029_1 . insertion 28373 28373 . . . reference=.;variantSeq=A;coverage=50;confidence=93 tig00000029_1 . insertion 29173 29173 . . . reference=.;variantSeq=TCTC;coverage=81;confidence=93 tig00000029_1 . insertion 29454 29454 . . . reference=.;variantSeq=CTTTC;coverage=67;confidence=80 tig00000029_1 . insertion 29455 29455 . . . reference=.;variantSeq=C;coverage=67;confidence=93 tig00000029_1 . insertion 29583 29583 . . . reference=.;variantSeq=TC;coverage=70;confidence=93 tig00000029_1 . deletion 29842 29842 . . . reference=T;variantSeq=.;coverage=78;confidence=93 tig00000029_1 . substitution 29843 29843 . . . reference=C;variantSeq=A;coverage=78;confidence=93 tig00000029_1 . insertion 30717 30717 . . . reference=.;variantSeq=A;coverage=92;confidence=93 tig00000029_1 . insertion 31268 31268 . . . reference=.;variantSeq=C;coverage=106;confidence=78 tig00000029_1 . insertion 38980 38980 . . . reference=.;variantSeq=G;coverage=112;confidence=68 tig00000029_1 . insertion 39094 39094 . . . reference=.;variantSeq=AGAG;coverage=104;confidence=93 tig00000029_1 . insertion 51531 51531 . . . reference=.;variantSeq=CTCT;coverage=109;confidence=93 tig00000029_1 . insertion 51624 51624 . . . reference=.;variantSeq=CT;coverage=110;confidence=93 tig00000029_1 . insertion 53531 53531 . . . reference=.;variantSeq=C;coverage=106;confidence=71 tig00000029_1 . insertion 56259 56259 . . . reference=.;variantSeq=G;coverage=87;confidence=20 tig00000029_1 . insertion 56295 56295 . . . reference=.;variantSeq=C;coverage=89;confidence=52 tig00000029_1 . insertion 56354 56354 . . . reference=.;variantSeq=TG;coverage=91;confidence=93 tig00000029_1 . insertion 56652 56652 . . . reference=.;variantSeq=A;coverage=101;confidence=21 tig00000029_1 . insertion 56816 56816 . . . reference=.;variantSeq=CA;coverage=103;confidence=93 tig00000029_1 . insertion 57748 57748 . . . reference=.;variantSeq=GA;coverage=99;confidence=93 tig00000029_1 . insertion 63114 63114 . . . reference=.;variantSeq=ACACAC;coverage=92;confidence=93

aureliendejode avatar Aug 20 '21 14:08 aureliendejode

Hello Arang,

I am in the final steps of the assembly for my genome before scaffolding and I'd really like to get going with merfin. Any news about this ?

Thanks for your help

aureliendejode avatar Sep 15 '21 09:09 aureliendejode