# Assembly name: bCopSec1.hap2 # Organism name: Copsychus sechellarum (birds) # Isolate: bCopSec1 # Sex: female # Taxid: 797021 # BioSample: SAMN51285028 # BioProject: PRJNA1327562 # Submitter: Vertebrate Genomes Project # Date: 2025-12-18 # Assembly type: haploid (haplotype 2) # Release type: major # Assembly level: Chromosome # Genome representation: full # WGS project: JBSNBN01 # Assembly method: HiFiasm + Hi-C phasing v. 0.19.9 + galaxy0; Bionano Solve DLS v. 3.7.0 + galaxy3; YaHS v. 1.2a.2 + galaxy1 # Expected final version: No # Genome coverage: 39.42x # Sequencing technology: PacBio Sequel II HiFi; Arima Hi-C; Bionano optical mapping (Saphyr) # RefSeq category: Reference Genome # GenBank assembly accession: GCA_054084135.1 # Linked assembly: GCA_054084125.1 (haplotype 1) # ## Assembly-Units: ## GenBank Unit Accession RefSeq Unit Accession Assembly-Unit name ## GCA_054084165.1 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 CM133777.1 <> na Primary Assembly 155543441 na SUPER_2 assembled-molecule 2 Chromosome CM133778.1 <> na Primary Assembly 115058996 na SUPER_3 assembled-molecule 3 Chromosome CM133779.1 <> na Primary Assembly 113457068 na SUPER_4 assembled-molecule 4 Chromosome CM133780.1 <> na Primary Assembly 71944673 na SUPER_5 assembled-molecule 5 Chromosome CM133781.1 <> na Primary Assembly 74889134 na SUPER_6 assembled-molecule 6 Chromosome CM133782.1 <> na Primary Assembly 62452508 na SUPER_7 assembled-molecule 7 Chromosome CM133783.1 <> na Primary Assembly 37040452 na SUPER_8 assembled-molecule 8 Chromosome CM133784.1 <> na Primary Assembly 39275858 na SUPER_9 assembled-molecule 9 Chromosome CM133785.1 <> na Primary Assembly 29458221 na SUPER_10 assembled-molecule 10 Chromosome CM133786.1 <> na Primary Assembly 30360993 na SUPER_11 assembled-molecule 11 Chromosome CM133787.1 <> na Primary Assembly 19658159 na SUPER_12 assembled-molecule 12 Chromosome CM133788.1 <> na Primary Assembly 18181375 na SUPER_13 assembled-molecule 13 Chromosome CM133789.1 <> na Primary Assembly 16295936 na SUPER_14 assembled-molecule 14 Chromosome CM133790.1 <> na Primary Assembly 24045478 na SUPER_15 assembled-molecule 15 Chromosome CM133791.1 <> na Primary Assembly 18981907 na SUPER_16 assembled-molecule 16 Chromosome CM133792.1 <> na Primary Assembly 22233880 na SUPER_17 assembled-molecule 17 Chromosome CM133793.1 <> na Primary Assembly 10157783 na SUPER_18 assembled-molecule 18 Chromosome CM133794.1 <> na Primary Assembly 11726749 na SUPER_19 assembled-molecule 19 Chromosome CM133795.1 <> na Primary Assembly 16079247 na SUPER_20 assembled-molecule 20 Chromosome CM133796.1 <> na Primary Assembly 15496005 na SUPER_21 assembled-molecule 21 Chromosome CM133797.1 <> na Primary Assembly 14952585 na SUPER_22 assembled-molecule 22 Chromosome CM133798.1 <> na Primary Assembly 9717119 na SUPER_23 assembled-molecule 23 Chromosome CM133799.1 <> na Primary Assembly 5992687 na SUPER_24 assembled-molecule 24 Chromosome CM133800.1 <> na Primary Assembly 6331526 na SUPER_25 assembled-molecule 25 Chromosome CM133801.1 <> na Primary Assembly 8301923 na SUPER_26 assembled-molecule 26 Chromosome CM133802.1 <> na Primary Assembly 9667103 na SUPER_27 assembled-molecule 27 Chromosome CM133803.1 <> na Primary Assembly 5565116 na SUPER_28 assembled-molecule 28 Chromosome CM133804.1 <> na Primary Assembly 6634054 na SUPER_29 assembled-molecule 29 Chromosome CM133805.1 <> na Primary Assembly 4914308 na SUPER_30 assembled-molecule 30 Chromosome CM133806.1 <> na Primary Assembly 5222592 na SUPER_31 assembled-molecule 31 Chromosome CM133807.1 <> na Primary Assembly 5693997 na SUPER_32 assembled-molecule 32 Chromosome CM133808.1 <> na Primary Assembly 1350474 na SUPER_33 assembled-molecule 33 Chromosome CM133809.1 <> na Primary Assembly 2952696 na SUPER_34 assembled-molecule 34 Chromosome CM133810.1 <> na Primary Assembly 3696604 na SUPER_35 assembled-molecule 35 Chromosome CM133811.1 <> na Primary Assembly 2291377 na SUPER_36 assembled-molecule 36 Chromosome CM133812.1 <> na Primary Assembly 5182715 na SUPER_3_unloc_2 unlocalized-scaffold 3 Chromosome JBSNBN010000045.1 <> na Primary Assembly 885795 na SUPER_3_unloc_1 unlocalized-scaffold 3 Chromosome JBSNBN010000077.1 <> na Primary Assembly 153066 na SUPER_4_unloc_1 unlocalized-scaffold 4 Chromosome JBSNBN010000043.1 <> na Primary Assembly 1111924 na SUPER_19_unloc_1 unlocalized-scaffold 19 Chromosome JBSNBN010000141.1 <> na Primary Assembly 57077 na SUPER_21_unloc_1 unlocalized-scaffold 21 Chromosome JBSNBN010000061.1 <> na Primary Assembly 283715 na Scaffold_79 unplaced-scaffold na na JBSNBN010000028.1 <> na Primary Assembly 5739224 na Scaffold_78 unplaced-scaffold na na JBSNBN010000034.1 <> na Primary Assembly 4254443 na Scaffold_115 unplaced-scaffold na na JBSNBN010000036.1 <> na Primary Assembly 3522420 na Scaffold_84 unplaced-scaffold na na JBSNBN010000037.1 <> na Primary Assembly 3077805 na Scaffold_92 unplaced-scaffold na na JBSNBN010000040.1 <> na Primary Assembly 1705788 na Scaffold_89 unplaced-scaffold na na JBSNBN010000041.1 <> na Primary Assembly 1618712 na Scaffold_107 unplaced-scaffold na na JBSNBN010000044.1 <> na Primary Assembly 86653 na Scaffold_93 unplaced-scaffold na na JBSNBN010000046.1 <> na Primary Assembly 814879 na Scaffold_76 unplaced-scaffold na na JBSNBN010000047.1 <> na Primary Assembly 777948 na Scaffold_103 unplaced-scaffold na na JBSNBN010000048.1 <> na Primary Assembly 765300 na Scaffold_164 unplaced-scaffold na na JBSNBN010000049.1 <> na Primary Assembly 635233 na Scaffold_129 unplaced-scaffold na na JBSNBN010000050.1 <> na Primary Assembly 534331 na Scaffold_117 unplaced-scaffold na na JBSNBN010000051.1 <> na Primary Assembly 527755 na Scaffold_108 unplaced-scaffold na na JBSNBN010000052.1 <> na Primary Assembly 72037 na Scaffold_91 unplaced-scaffold na na JBSNBN010000053.1 <> na Primary Assembly 512481 na Scaffold_130 unplaced-scaffold na na JBSNBN010000054.1 <> na Primary Assembly 463182 na Scaffold_94 unplaced-scaffold na na JBSNBN010000055.1 <> na Primary Assembly 463162 na Scaffold_187 unplaced-scaffold na na JBSNBN010000056.1 <> na Primary Assembly 425643 na Scaffold_110 unplaced-scaffold na na JBSNBN010000057.1 <> na Primary Assembly 35932 na Scaffold_202 unplaced-scaffold na na JBSNBN010000058.1 <> na Primary Assembly 318419 na Scaffold_105 unplaced-scaffold na na JBSNBN010000059.1 <> na Primary Assembly 307704 na Scaffold_112 unplaced-scaffold na na JBSNBN010000060.1 <> na Primary Assembly 75146 na Scaffold_215 unplaced-scaffold na na JBSNBN010000062.1 <> na Primary Assembly 261331 na Scaffold_218 unplaced-scaffold na na 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Assembly 163621 na Scaffold_97 unplaced-scaffold na na JBSNBN010000075.1 <> na Primary Assembly 161939 na Scaffold_90 unplaced-scaffold na na JBSNBN010000076.1 <> na Primary Assembly 159650 na Scaffold_247 unplaced-scaffold na na JBSNBN010000078.1 <> na Primary Assembly 151057 na Scaffold_248 unplaced-scaffold na na JBSNBN010000079.1 <> na Primary Assembly 149308 na Scaffold_95 unplaced-scaffold na na JBSNBN010000080.1 <> na Primary Assembly 149101 na Scaffold_96 unplaced-scaffold na na JBSNBN010000081.1 <> na Primary Assembly 142765 na Scaffold_252 unplaced-scaffold na na JBSNBN010000082.1 <> na Primary Assembly 135551 na Scaffold_254 unplaced-scaffold na na JBSNBN010000083.1 <> na Primary Assembly 134042 na Scaffold_255 unplaced-scaffold na na JBSNBN010000084.1 <> na Primary Assembly 133400 na Scaffold_256 unplaced-scaffold na na JBSNBN010000085.1 <> na Primary Assembly 132611 na Scaffold_257 unplaced-scaffold na na JBSNBN010000086.1 <> na Primary Assembly 131935 na Scaffold_258 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83426 na Scaffold_312 unplaced-scaffold na na JBSNBN010000110.1 <> na Primary Assembly 82807 na Scaffold_314 unplaced-scaffold na na JBSNBN010000111.1 <> na Primary Assembly 81024 na Scaffold_315 unplaced-scaffold na na JBSNBN010000112.1 <> na Primary Assembly 80828 na Scaffold_317 unplaced-scaffold na na JBSNBN010000113.1 <> na Primary Assembly 80447 na Scaffold_318 unplaced-scaffold na na JBSNBN010000114.1 <> na Primary Assembly 80140 na Scaffold_319 unplaced-scaffold na na JBSNBN010000115.1 <> na Primary Assembly 78812 na Scaffold_320 unplaced-scaffold na na JBSNBN010000116.1 <> na Primary Assembly 77526 na Scaffold_321 unplaced-scaffold na na JBSNBN010000117.1 <> na Primary Assembly 77425 na Scaffold_323 unplaced-scaffold na na JBSNBN010000118.1 <> na Primary Assembly 76799 na Scaffold_326 unplaced-scaffold na na JBSNBN010000119.1 <> na Primary Assembly 75124 na Scaffold_328 unplaced-scaffold na na JBSNBN010000120.1 <> na Primary Assembly 74465 na Scaffold_330 unplaced-scaffold na 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63333 na Scaffold_967 unplaced-scaffold na na JBSNBN010000133.1 <> na Primary Assembly 63170 na Scaffold_351 unplaced-scaffold na na JBSNBN010000134.1 <> na Primary Assembly 62880 na Scaffold_353 unplaced-scaffold na na JBSNBN010000135.1 <> na Primary Assembly 62512 na Scaffold_354 unplaced-scaffold na na JBSNBN010000136.1 <> na Primary Assembly 62413 na Scaffold_360 unplaced-scaffold na na JBSNBN010000137.1 <> na Primary Assembly 59590 na Scaffold_361 unplaced-scaffold na na JBSNBN010000138.1 <> na Primary Assembly 58337 na Scaffold_362 unplaced-scaffold na na JBSNBN010000139.1 <> na Primary Assembly 57720 na Scaffold_363 unplaced-scaffold na na JBSNBN010000140.1 <> na Primary Assembly 57631 na Scaffold_368 unplaced-scaffold na na JBSNBN010000142.1 <> na Primary Assembly 55127 na Scaffold_371 unplaced-scaffold na na JBSNBN010000143.1 <> na Primary Assembly 54158 na Scaffold_978 unplaced-scaffold na na JBSNBN010000144.1 <> na Primary Assembly 53966 na Scaffold_372 unplaced-scaffold na 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Assembly 35410 na Scaffold_1014 unplaced-scaffold na na JBSNBN010000180.1 <> na Primary Assembly 35341 na Scaffold_1015 unplaced-scaffold na na JBSNBN010000181.1 <> na Primary Assembly 33915 na Scaffold_415 unplaced-scaffold na na JBSNBN010000182.1 <> na Primary Assembly 33902 na Scaffold_1017 unplaced-scaffold na na JBSNBN010000183.1 <> na Primary Assembly 31894 na Scaffold_1018 unplaced-scaffold na na JBSNBN010000184.1 <> na Primary Assembly 31324 na Scaffold_421 unplaced-scaffold na na JBSNBN010000185.1 <> na Primary Assembly 30152 na Scaffold_422 unplaced-scaffold na na JBSNBN010000186.1 <> na Primary Assembly 29769 na Scaffold_424 unplaced-scaffold na na JBSNBN010000187.1 <> na Primary Assembly 28727 na Scaffold_425 unplaced-scaffold na na JBSNBN010000188.1 <> na Primary Assembly 28087 na Scaffold_427 unplaced-scaffold na na JBSNBN010000189.1 <> na Primary Assembly 26039 na