# Assembly name: mOliNig2.hap2 # Organism name: Oligoryzomys nigripes (Black-footed pygmy rice rat) # Isolate: mOliNig2 # Sex: female # Taxid: 37017 # BioSample: SAMN59321932 # BioProject: PRJNA1463264 # Submitter: Vertebrate Genomes Project # Date: 2026-06-03 # Assembly type: haploid (haplotype 2) # Release type: major # Assembly level: Chromosome # Genome representation: full # WGS project: JBYHCS01 # Assembly method: Hifiasm + Hi-C phasing v. 0.25.0 + galaxy0; yahs v. 1.2a.2 + galaxy2 # Expected final version: No # Genome coverage: 65.96x # Sequencing technology: PacBio Revio HiFi; Arima Hi-C v2 # GenBank assembly accession: GCA_057876665.1 # Linked assembly: GCA_057876635.1 (haplotype 1) # ## Assembly-Unit names: ## Primary Assembly # # Ordered by chromosome/plasmid; the chromosomes/plasmids are followed by # unlocalized scaffolds. # Unplaced scaffolds are listed at the end. # RefSeq is equal or derived from GenBank object. # # Sequence-Name Sequence-Role Assigned-Molecule Assigned-Molecule-Location/Type GenBank-Accn Relationship RefSeq-Accn Assembly-Unit Sequence-Length UCSC-style-name SUPER_1 assembled-molecule 1 Chromosome CM174592.1 <> na Primary Assembly 204013389 na SUPER_2 assembled-molecule 2 Chromosome CM174593.1 <> na Primary Assembly 161625830 na SUPER_3 assembled-molecule 3 Chromosome CM174594.1 <> na Primary Assembly 154774108 na SUPER_4 assembled-molecule 4 Chromosome CM174595.1 <> na Primary Assembly 129987131 na SUPER_5 assembled-molecule 5 Chromosome CM174596.1 <> na Primary Assembly 113817686 na SUPER_6 assembled-molecule 6 Chromosome CM174597.1 <> na Primary Assembly 96769667 na SUPER_7 assembled-molecule 7 Chromosome CM174598.1 <> na Primary Assembly 98168720 na SUPER_8 assembled-molecule 8 Chromosome CM174599.1 <> na Primary Assembly 88983667 na SUPER_9 assembled-molecule 9 Chromosome CM174600.1 <> na Primary Assembly 89407745 na SUPER_10 assembled-molecule 10 Chromosome CM174601.1 <> na Primary Assembly 78457148 na SUPER_11 assembled-molecule 11 Chromosome CM174602.1 <> na Primary Assembly 78327167 na SUPER_12 assembled-molecule 12 Chromosome CM174603.1 <> na Primary Assembly 63558663 na SUPER_13 assembled-molecule 13 Chromosome CM174604.1 <> na Primary Assembly 75934277 na SUPER_14 assembled-molecule 14 Chromosome CM174605.1 <> na Primary Assembly 71891987 na SUPER_15 assembled-molecule 15 Chromosome CM174606.1 <> na Primary Assembly 73509787 na SUPER_16 assembled-molecule 16 Chromosome CM174607.1 <> na Primary Assembly 67520641 na SUPER_17 assembled-molecule 17 Chromosome CM174608.1 <> na Primary Assembly 68362725 na SUPER_18 assembled-molecule 18 Chromosome CM174609.1 <> na Primary Assembly 62751466 na SUPER_19 assembled-molecule 19 Chromosome CM174610.1 <> na Primary Assembly 58161205 na SUPER_20 assembled-molecule 20 Chromosome CM174611.1 <> na Primary Assembly 63058700 na SUPER_21 assembled-molecule 21 Chromosome CM174612.1 <> na Primary Assembly 54578734 na SUPER_22 assembled-molecule 22 Chromosome CM174613.1 <> na Primary Assembly 50490644 na SUPER_23 assembled-molecule 23 Chromosome CM174614.1 <> na Primary Assembly 49756186 na SUPER_24 assembled-molecule 24 Chromosome CM174615.1 <> na Primary Assembly 49951393 na SUPER_25 assembled-molecule 25 Chromosome CM174616.1 <> na Primary Assembly 44885137 na SUPER_26 assembled-molecule 26 Chromosome CM174617.1 <> na Primary Assembly 37419181 na SUPER_27 assembled-molecule 27 Chromosome CM174618.1 <> na Primary Assembly 34803687 na SUPER_28 assembled-molecule 28 Chromosome CM174619.1 <> na Primary Assembly 34827770 na SUPER_29 assembled-molecule 29 Chromosome CM174620.1 <> na Primary Assembly 31489591 na SUPER_30 assembled-molecule 30 Chromosome CM174621.1 <> na Primary Assembly 32168168 na SUPER_X assembled-molecule X Chromosome CM174622.1 <> na Primary Assembly 162791536 na SUPER_3_unloc_1 unlocalized-scaffold 3 Chromosome JBYHCS010000045.1 <> na Primary Assembly 275003 na SUPER_5_unloc_1 unlocalized-scaffold 5 Chromosome JBYHCS010000040.1 <> na Primary Assembly 353221 na SUPER_14_unloc_1 unlocalized-scaffold 14 Chromosome JBYHCS010000032.1 <> na Primary Assembly 758558 na Scaffold_64 unplaced-scaffold na na JBYHCS010000033.1 <> na Primary Assembly 547721 na Scaffold_68 unplaced-scaffold na na JBYHCS010000034.1 <> na Primary Assembly 515592 na Scaffold_69 unplaced-scaffold na na JBYHCS010000035.1 <> na Primary Assembly 501294 na Scaffold_70 unplaced-scaffold na na JBYHCS010000036.1 <> na Primary Assembly 498696 na Scaffold_74 unplaced-scaffold na na JBYHCS010000037.1 <> na Primary Assembly 491571 na Scaffold_76 unplaced-scaffold na na JBYHCS010000038.1 <> na Primary Assembly 395724 na Scaffold_77 unplaced-scaffold na na JBYHCS010000039.1 <> na Primary Assembly 391796 na Scaffold_80 unplaced-scaffold na na JBYHCS010000041.1 <> na Primary Assembly 347794 na Scaffold_81 unplaced-scaffold na na JBYHCS010000042.1 <> na Primary Assembly 330998 na Scaffold_83 unplaced-scaffold na na JBYHCS010000043.1 <> na Primary Assembly 287182 na Scaffold_84 unplaced-scaffold na na JBYHCS010000044.1 <> na Primary Assembly 279673 na Scaffold_85 unplaced-scaffold na na JBYHCS010000046.1 <> na Primary Assembly 274026 na Scaffold_86 unplaced-scaffold na na JBYHCS010000047.1 <> na Primary Assembly 259612 na Scaffold_87 unplaced-scaffold na na JBYHCS010000048.1 <> na Primary Assembly 255949 na Scaffold_65 unplaced-scaffold na na JBYHCS010000049.1 <> na Primary Assembly 252398 na Scaffold_90 unplaced-scaffold na na JBYHCS010000050.1 <> na Primary Assembly 245248 na Scaffold_92 unplaced-scaffold na na JBYHCS010000051.1 <> na Primary Assembly 239788 na Scaffold_93 unplaced-scaffold na na JBYHCS010000052.1 <> na Primary Assembly 230787 na Scaffold_94 unplaced-scaffold na na JBYHCS010000053.1 <> na Primary Assembly 210462 na Scaffold_95 unplaced-scaffold na na JBYHCS010000054.1 <> na Primary Assembly 202622 na Scaffold_96 unplaced-scaffold na na JBYHCS010000055.1 <> na Primary Assembly 190393 na Scaffold_97 unplaced-scaffold na na JBYHCS010000056.1 <> na Primary Assembly 184990 na Scaffold_98 unplaced-scaffold na na JBYHCS010000057.1 <> na Primary Assembly 179153 na Scaffold_99 unplaced-scaffold na na JBYHCS010000058.1 <> na Primary Assembly 168204 na Scaffold_100 unplaced-scaffold na na JBYHCS010000059.1 <> na Primary Assembly 165857 na Scaffold_104 unplaced-scaffold na na JBYHCS010000060.1 <> na Primary Assembly 148822 na Scaffold_106 unplaced-scaffold na na JBYHCS010000061.1 <> na Primary Assembly 138985 na Scaffold_107 unplaced-scaffold na na JBYHCS010000062.1 <> na Primary Assembly 138165 na Scaffold_319 unplaced-scaffold na na JBYHCS010000063.1 <> na Primary Assembly 133760 na Scaffold_112 unplaced-scaffold na na JBYHCS010000064.1 <> na Primary Assembly 102501 na Scaffold_113 unplaced-scaffold na na JBYHCS010000065.1 <> na Primary Assembly 102168 na Scaffold_116 unplaced-scaffold na na JBYHCS010000066.1 <> na Primary Assembly 93814 na Scaffold_315 unplaced-scaffold na na JBYHCS010000067.1 <> na Primary Assembly 89680 na Scaffold_314 unplaced-scaffold na na JBYHCS010000068.1 <> na Primary Assembly 79600 na Scaffold_121 unplaced-scaffold na na JBYHCS010000069.1 <> na Primary Assembly 73544 na Scaffold_312 unplaced-scaffold na na JBYHCS010000070.1 <> na Primary Assembly 70834 na Scaffold_122 unplaced-scaffold na na JBYHCS010000071.1 <> na Primary Assembly 65205 na Scaffold_310 unplaced-scaffold na na JBYHCS010000072.1 <> na Primary Assembly 61091 na Scaffold_125 unplaced-scaffold na na JBYHCS010000073.1 <> na Primary Assembly 60877 na Scaffold_323 unplaced-scaffold na na JBYHCS010000074.1 <> na Primary Assembly 58525 na Scaffold_126 unplaced-scaffold na na JBYHCS010000075.1 <> na Primary Assembly 53567 na Scaffold_357 unplaced-scaffold na na JBYHCS010000076.1 <> na Primary Assembly 52162 na Scaffold_127 unplaced-scaffold na na JBYHCS010000077.1 <> na Primary Assembly 51957 na Scaffold_129 unplaced-scaffold na na JBYHCS010000078.1 <> na Primary Assembly 50743 na Scaffold_354 unplaced-scaffold na na JBYHCS010000079.1 <> na Primary Assembly 46079 na Scaffold_353 unplaced-scaffold na na JBYHCS010000080.1 <> na Primary Assembly 45418 na Scaffold_352 unplaced-scaffold na na JBYHCS010000081.1 <> na Primary Assembly 43809 na Scaffold_351 unplaced-scaffold na na JBYHCS010000082.1 <> na Primary Assembly 42622 na Scaffold_350 unplaced-scaffold na na JBYHCS010000083.1 <> na Primary Assembly 41609 na Scaffold_349 unplaced-scaffold na na JBYHCS010000084.1 <> na Primary Assembly 39970 na Scaffold_348 unplaced-scaffold na na JBYHCS010000085.1 <> na Primary Assembly 39488 na Scaffold_347 unplaced-scaffold na na JBYHCS010000086.1 <> na Primary Assembly 38342 na Scaffold_346 unplaced-scaffold na na JBYHCS010000087.1 <> na Primary Assembly 38135 na Scaffold_337 unplaced-scaffold na na JBYHCS010000088.1 <> na Primary Assembly 38030 na Scaffold_138 unplaced-scaffold na na JBYHCS010000089.1 <> na Primary Assembly 32715 na Scaffold_343 unplaced-scaffold na na JBYHCS010000090.1 <> na Primary Assembly 31730 na Scaffold_342 unplaced-scaffold na na JBYHCS010000091.1 <> na Primary Assembly 30082 na Scaffold_341 unplaced-scaffold na na JBYHCS010000092.1 <> na Primary Assembly 28662 na Scaffold_340 unplaced-scaffold na na JBYHCS010000093.1 <> na Primary Assembly 24468 na Scaffold_339 unplaced-scaffold na na JBYHCS010000094.1 <> na Primary Assembly 24259 na Scaffold_338 unplaced-scaffold na na JBYHCS010000095.1 <> na Primary Assembly 21812 na