# Assembly name: mTamHud3.hap2 # Organism name: Tamiasciurus hudsonicus (American red squirrel) # Isolate: mTamHud3 # Sex: female # Taxid: 10009 # BioSample: SAMN57316951 # BioProject: PRJNA1454671 # Submitter: Vertebrate Genomes Project # Date: 2026-05-15 # Assembly type: haploid (haplotype 2) # Release type: major # Assembly level: Chromosome # Genome representation: full # WGS project: JBXXPP01 # Assembly method: Hifiasm + Hi-C phasing v. 0.25.0 + galaxy0; yahs v. 1.2a.2 + galaxy3 # Expected final version: No # Genome coverage: 68.08x # Sequencing technology: PacBio Revio HiFi; Arima Hi-C v2 # GenBank assembly accession: GCA_057657875.1 # Linked assembly: GCA_057657825.1 (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 CM172945.1 <> na Primary Assembly 376326724 na SUPER_2 assembled-molecule 2 Chromosome CM172946.1 <> na Primary Assembly 348922283 na SUPER_3 assembled-molecule 3 Chromosome CM172947.1 <> na Primary Assembly 364583953 na SUPER_4 assembled-molecule 4 Chromosome CM172948.1 <> na Primary Assembly 316694204 na SUPER_5 assembled-molecule 5 Chromosome CM172949.1 <> na Primary Assembly 268476289 na SUPER_6 assembled-molecule 6 Chromosome CM172950.1 <> na Primary Assembly 226676821 na SUPER_7 assembled-molecule 7 Chromosome CM172951.1 <> na Primary Assembly 223645586 na SUPER_8 assembled-molecule 8 Chromosome CM172952.1 <> na Primary Assembly 281386624 na SUPER_9 assembled-molecule 9 Chromosome CM172953.1 <> na Primary Assembly 207182645 na SUPER_10 assembled-molecule 10 Chromosome CM172954.1 <> na Primary Assembly 238270385 na SUPER_11 assembled-molecule 11 Chromosome CM172955.1 <> na Primary Assembly 112285148 na SUPER_12 assembled-molecule 12 Chromosome CM172956.1 <> na Primary Assembly 198887183 na SUPER_13 assembled-molecule 13 Chromosome CM172957.1 <> na Primary Assembly 199303970 na SUPER_14 assembled-molecule 14 Chromosome CM172958.1 <> na Primary Assembly 166995628 na SUPER_15 assembled-molecule 15 Chromosome CM172959.1 <> na Primary Assembly 156725286 na SUPER_16 assembled-molecule 16 Chromosome CM172960.1 <> na Primary Assembly 189985906 na SUPER_17 assembled-molecule 17 Chromosome CM172961.1 <> na Primary Assembly 164122711 na SUPER_18 assembled-molecule 18 Chromosome CM172962.1 <> na Primary Assembly 189887943 na SUPER_19 assembled-molecule 19 Chromosome CM172963.1 <> na Primary Assembly 167081335 na SUPER_20 assembled-molecule 20 Chromosome CM172964.1 <> na Primary Assembly 105361061 na SUPER_21 assembled-molecule 21 Chromosome CM172965.1 <> na Primary Assembly 156189035 na SUPER_22 assembled-molecule 22 Chromosome CM172966.1 <> na Primary Assembly 119553476 na SUPER_X assembled-molecule X Chromosome CM172967.1 <> na Primary Assembly 140771738 na SUPER_2_unloc_1 unlocalized-scaffold 2 Chromosome JBXXPP010000040.1 <> na Primary Assembly 550086 na SUPER_4_unloc_1 unlocalized-scaffold 4 Chromosome JBXXPP010000045.1 <> na Primary Assembly 275126 na SUPER_9_unloc_1 unlocalized-scaffold 9 Chromosome JBXXPP010000034.1 <> na Primary Assembly 1379026 na SUPER_10_unloc_1 unlocalized-scaffold 10 Chromosome JBXXPP010000035.1 <> na Primary Assembly 976248 na Scaffold_71 unplaced-scaffold na na JBXXPP010000021.1 <> na Primary Assembly 129922827 na Scaffold_48 unplaced-scaffold na na JBXXPP010000025.1 <> na Primary Assembly 65002807 na Scaffold_57 unplaced-scaffold na na JBXXPP010000026.1 <> na Primary Assembly 63845903 na Scaffold_52 unplaced-scaffold na na JBXXPP010000027.1 <> na Primary Assembly 50374669 na Scaffold_64 unplaced-scaffold na na JBXXPP010000028.1 <> na Primary Assembly 35759145 na Scaffold_54 unplaced-scaffold na na JBXXPP010000029.1 <> na Primary Assembly 33012093 na Scaffold_55 unplaced-scaffold na na JBXXPP010000030.1 <> na Primary Assembly 21659753 na Scaffold_51 unplaced-scaffold na na JBXXPP010000031.1 <> na Primary Assembly 8155433 na Scaffold_62 unplaced-scaffold na na JBXXPP010000032.1 <> na Primary Assembly 4447071 na Scaffold_65 unplaced-scaffold na na JBXXPP010000033.1 <> na Primary Assembly 1974617 na Scaffold_72 unplaced-scaffold na na JBXXPP010000036.1 <> na Primary Assembly 873494 na Scaffold_76 unplaced-scaffold na na JBXXPP010000037.1 <> na Primary Assembly 829235 na Scaffold_77 unplaced-scaffold na na JBXXPP010000038.1 <> na Primary Assembly 801582 na Scaffold_78 unplaced-scaffold na na JBXXPP010000039.1 <> na Primary Assembly 596011 na Scaffold_79 unplaced-scaffold na na JBXXPP010000041.1 <> na Primary Assembly 481180 na Scaffold_80 unplaced-scaffold na na JBXXPP010000042.1 <> na Primary Assembly 406642 na Scaffold_86 unplaced-scaffold na na JBXXPP010000043.1 <> na Primary Assembly 341950 na Scaffold_88 unplaced-scaffold na na JBXXPP010000044.1 <> na Primary Assembly 293550 na Scaffold_90 unplaced-scaffold na na JBXXPP010000046.1 <> na Primary Assembly 262536 na Scaffold_92 unplaced-scaffold na na JBXXPP010000047.1 <> na Primary Assembly 253241 na Scaffold_94 unplaced-scaffold na na JBXXPP010000048.1 <> na Primary Assembly 230687 na Scaffold_96 unplaced-scaffold na na JBXXPP010000049.1 <> na Primary Assembly 197787 na Scaffold_99 unplaced-scaffold na na JBXXPP010000050.1 <> na Primary Assembly 192019 na Scaffold_109 unplaced-scaffold na na JBXXPP010000051.1 <> na Primary Assembly 168290 na Scaffold_113 unplaced-scaffold na na JBXXPP010000052.1 <> na Primary Assembly 158002 na Scaffold_114 unplaced-scaffold na na JBXXPP010000053.1 <> na Primary Assembly 155730 na Scaffold_115 unplaced-scaffold na na JBXXPP010000054.1 <> na Primary Assembly 152473 na Scaffold_116 unplaced-scaffold na na JBXXPP010000055.1 <> na Primary Assembly 149018 na Scaffold_117 unplaced-scaffold na na JBXXPP010000056.1 <> na Primary Assembly 147211 na Scaffold_121 unplaced-scaffold na na JBXXPP010000057.1 <> na Primary Assembly 130803 na Scaffold_123 unplaced-scaffold na na JBXXPP010000058.1 <> na Primary Assembly 121426 na Scaffold_125 unplaced-scaffold na na JBXXPP010000059.1 <> na Primary Assembly 106696 na Scaffold_309 unplaced-scaffold na na JBXXPP010000060.1 <> na Primary Assembly 97479 na Scaffold_131 unplaced-scaffold na na JBXXPP010000061.1 <> na Primary Assembly 87187 na Scaffold_134 unplaced-scaffold na na JBXXPP010000062.1 <> na Primary Assembly 75313 na Scaffold_306 unplaced-scaffold na na JBXXPP010000063.1 <> na Primary Assembly 74564 na Scaffold_135 unplaced-scaffold na na JBXXPP010000064.1 <> na Primary Assembly 73850 na Scaffold_304 unplaced-scaffold na na JBXXPP010000065.1 <> na Primary Assembly 71530 na Scaffold_303 unplaced-scaffold na na JBXXPP010000066.1 <> na Primary Assembly 64969 na Scaffold_302 unplaced-scaffold na na JBXXPP010000067.1 <> na Primary Assembly 62465 na Scaffold_301 unplaced-scaffold na na JBXXPP010000068.1 <> na Primary Assembly 62414 na Scaffold_138 unplaced-scaffold na na JBXXPP010000069.1 <> na Primary Assembly 61434 na Scaffold_299 unplaced-scaffold na na JBXXPP010000070.1 <> na Primary Assembly 60726 na Scaffold_298 unplaced-scaffold na na JBXXPP010000071.1 <> na Primary Assembly 58434 na Scaffold_139 unplaced-scaffold na na JBXXPP010000072.1 <> na Primary Assembly 57801 na Scaffold_310 unplaced-scaffold na na JBXXPP010000073.1 <> na Primary Assembly 57050 na Scaffold_346 unplaced-scaffold na na JBXXPP010000074.1 <> na Primary Assembly 55259 na Scaffold_141 unplaced-scaffold na na JBXXPP010000075.1 <> na Primary Assembly 55171 na Scaffold_142 unplaced-scaffold na na JBXXPP010000076.1 <> na Primary Assembly 52674 na Scaffold_343 unplaced-scaffold na na JBXXPP010000077.1 <> na Primary Assembly 50644 na Scaffold_342 unplaced-scaffold na na JBXXPP010000078.1 <> na Primary Assembly 49564 na Scaffold_341 unplaced-scaffold na na JBXXPP010000079.1 <> na Primary Assembly 49351 na Scaffold_146 unplaced-scaffold na na JBXXPP010000080.1 <> na Primary Assembly 47715 na Scaffold_339 unplaced-scaffold na na JBXXPP010000081.1 <> na Primary Assembly 45968 na Scaffold_338 unplaced-scaffold na na JBXXPP010000082.1 <> na Primary Assembly 45740 na Scaffold_148 unplaced-scaffold na na JBXXPP010000083.1 <> na Primary Assembly 45687 na Scaffold_336 unplaced-scaffold na na JBXXPP010000084.1 <> na Primary Assembly 43833 na Scaffold_152 unplaced-scaffold na na JBXXPP010000085.1 <> na Primary Assembly 38177 na Scaffold_334 unplaced-scaffold na na JBXXPP010000086.1 <> na Primary Assembly 37267 na Scaffold_333 unplaced-scaffold na na JBXXPP010000087.1 <> na Primary Assembly 37233 na Scaffold_332 unplaced-scaffold na na JBXXPP010000088.1 <> na Primary Assembly 37145 na Scaffold_154 unplaced-scaffold na na JBXXPP010000089.1 <> na Primary Assembly 37136 na Scaffold_330 unplaced-scaffold na na JBXXPP010000090.1 <> na Primary Assembly 37098 na Scaffold_329 unplaced-scaffold na na JBXXPP010000091.1 <> na Primary Assembly 37084 na Scaffold_155 unplaced-scaffold na na JBXXPP010000092.1 <> na Primary Assembly 36784 na Scaffold_327 unplaced-scaffold na na JBXXPP010000093.1 <> na Primary Assembly 34365 na Scaffold_326 unplaced-scaffold na na JBXXPP010000094.1 <> na Primary Assembly 33950 na Scaffold_325 unplaced-scaffold na na JBXXPP010000095.1 <> na Primary Assembly 30182 na Scaffold_324 unplaced-scaffold na na JBXXPP010000096.1 <> na Primary Assembly 29198 na