# Assembly name: bPluApr1.pri # Organism name: Pluvialis apricaria (birds) # Isolate: bPluApr1 # Sex: female # Taxid: 670352 # BioSample: SAMN18353970 # BioProject: PRJNA715924 # Submitter: Vertebrate Genomes Project # Date: 2021-03-30 # Assembly type: haploid (principal pseudohaplotype of diploid) # Release type: major # Assembly level: Chromosome # Genome representation: full # WGS project: JAGGDV01 # Assembly method: FALCON v. DX 2.0.2; FALCON-Unzip v. DX 8.0.1; purge_dups v. DX 19-08-10; scaff10X v. DX 2.0.3; bionano Solve v. DX 3.4.0; Salsa2 HiC v. DX 2.2.0; pbalign v. 0.3.2; pbgcpp v. 1.9.0; Longranger Align v. DX 2.2.2.1; freebayes v. DX 19-07-11; gEVAL manual curation v. 2020-07-15; VGP assembly pipeline v. 1.6 # Expected final version: no # Genome coverage: 60.0x # Sequencing technology: PacBio Sequel II CLR; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS # RefSeq category: Representative Genome # GenBank assembly accession: GCA_017639485.1 # Linked assembly: GCA_017639475.1 (alternate pseudohaplotype of diploid) # ## Assembly-Units: ## GenBank Unit Accession RefSeq Unit Accession Assembly-Unit name ## GCA_017639495.1 Primary Assembly ## GCA_017639505.1 non-nuclear # # 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 CM030007.1 <> na Primary Assembly 222690203 na SUPER_2 assembled-molecule 2 Chromosome CM030008.1 <> na Primary Assembly 170649099 na SUPER_3 assembled-molecule 3 Chromosome CM030009.1 <> na Primary Assembly 130366996 na SUPER_4 assembled-molecule 4 Chromosome CM030010.1 <> na Primary Assembly 87940528 na SUPER_5 assembled-molecule 5 Chromosome CM030011.1 <> na Primary Assembly 82583854 na SUPER_6 assembled-molecule 6 Chromosome CM030012.1 <> na Primary Assembly 73763424 na SUPER_7 assembled-molecule 7 Chromosome CM030013.1 <> na Primary Assembly 42078291 na SUPER_8 assembled-molecule 8 Chromosome CM030014.1 <> na Primary Assembly 30865217 na SUPER_9 assembled-molecule 9 Chromosome CM030015.1 <> na Primary Assembly 25949991 na SUPER_10 assembled-molecule 10 Chromosome CM030016.1 <> na Primary Assembly 25537847 na SUPER_11 assembled-molecule 11 Chromosome CM030017.1 <> na Primary Assembly 25290260 na SUPER_12 assembled-molecule 12 Chromosome CM030018.1 <> na Primary Assembly 24338566 na SUPER_13 assembled-molecule 13 Chromosome CM030019.1 <> na Primary Assembly 22649114 na SUPER_14 assembled-molecule 14 Chromosome CM030020.1 <> na Primary Assembly 20005404 na SUPER_15 assembled-molecule 15 Chromosome CM030021.1 <> na Primary Assembly 18052164 na SUPER_16 assembled-molecule 16 Chromosome CM030022.1 <> na Primary Assembly 17234370 na SUPER_17 assembled-molecule 17 Chromosome CM030023.1 <> na Primary Assembly 14852867 na SUPER_18 assembled-molecule 18 Chromosome CM030024.1 <> na Primary Assembly 13344232 na SUPER_19 assembled-molecule 19 Chromosome CM030025.1 <> na Primary Assembly 13303409 na SUPER_20 assembled-molecule 20 Chromosome CM030026.1 <> na Primary Assembly 9934724 na SUPER_21 assembled-molecule 21 Chromosome CM030027.1 <> na Primary Assembly 8858717 na SUPER_22 assembled-molecule 22 Chromosome CM030028.1 <> na Primary Assembly 8325701 na SUPER_23 assembled-molecule 23 Chromosome CM030029.1 <> na Primary Assembly 8168389 na SUPER_24 assembled-molecule 24 Chromosome CM030030.1 <> na Primary Assembly 6663771 na SUPER_25 assembled-molecule 25 Chromosome CM030031.1 <> na Primary Assembly 6646699 na SUPER_26 assembled-molecule 26 Chromosome CM030032.1 <> na Primary Assembly 6532261 na SUPER_27 assembled-molecule 27 Chromosome CM030033.1 <> na Primary Assembly 3511604 na SUPER_28 assembled-molecule 28 Chromosome CM030034.1 <> na Primary Assembly 2889162 na SUPER_29 assembled-molecule 29 Chromosome CM030035.1 <> na Primary Assembly 635111 na SUPER_30 assembled-molecule 30 Chromosome CM030036.1 <> na Primary Assembly 623351 na SUPER_31 assembled-molecule 31 Chromosome CM030037.1 <> na Primary Assembly 608577 na SUPER_32 assembled-molecule 32 Chromosome CM030038.1 <> na Primary Assembly 492460 na SUPER_33 assembled-molecule 33 Chromosome CM030039.1 <> na Primary Assembly 336360 na SUPER_34 assembled-molecule 34 Chromosome CM030040.1 <> na Primary Assembly 167868 na SUPER_35 assembled-molecule 35 Chromosome CM030041.1 <> na Primary Assembly 122121 na SUPER_36 assembled-molecule 36 Chromosome CM030042.1 <> na Primary Assembly 103129 na SUPER_W assembled-molecule W Chromosome CM030043.1 <> na Primary Assembly 32002124 na SUPER_Z assembled-molecule Z Chromosome CM030044.1 <> na Primary Assembly 87527607 na SUPER_29_unloc_1 unlocalized-scaffold 29 Chromosome JAGGDV010000080.1 <> na Primary Assembly 172689 na scaffold_100_ctg1 unplaced-scaffold na na JAGGDV010000039.1 <> na Primary Assembly 25855 na scaffold_101_ctg1 unplaced-scaffold na na JAGGDV010000040.1 <> na Primary Assembly 20639 na scaffold_102_ctg1 unplaced-scaffold na na JAGGDV010000041.1 <> na Primary Assembly 20589 na scaffold_103_ctg1 unplaced-scaffold na na JAGGDV010000042.1 <> na Primary Assembly 20272 na scaffold_104_ctg1 unplaced-scaffold na na JAGGDV010000043.1 <> na Primary Assembly 19731 na scaffold_105_ctg1 unplaced-scaffold na na JAGGDV010000044.1 <> na Primary Assembly 19767 na scaffold_106_ctg1 unplaced-scaffold na na JAGGDV010000045.1 <> na Primary Assembly 19302 na scaffold_107_ctg1 unplaced-scaffold na na JAGGDV010000046.1 <> na Primary Assembly 19097 na scaffold_108_ctg1 unplaced-scaffold na na JAGGDV010000047.1 <> na Primary Assembly 18909 na scaffold_110_ctg1 unplaced-scaffold na na JAGGDV010000048.1 <> na Primary Assembly 18038 na scaffold_111_ctg1 unplaced-scaffold na na JAGGDV010000049.1 <> na Primary Assembly 17087 na scaffold_112_ctg1 unplaced-scaffold na na JAGGDV010000050.1 <> na Primary Assembly 16802 na scaffold_113_ctg1 unplaced-scaffold na na JAGGDV010000051.1 <> na Primary Assembly 16656 na scaffold_114_ctg1 unplaced-scaffold na na JAGGDV010000052.1 <> na Primary Assembly 16001 na scaffold_115_ctg1 unplaced-scaffold na na JAGGDV010000053.1 <> na Primary Assembly 15823 na scaffold_116_ctg1 unplaced-scaffold na na JAGGDV010000054.1 <> na Primary Assembly 15068 na scaffold_117_ctg1 unplaced-scaffold na na JAGGDV010000055.1 <> na Primary Assembly 14898 na scaffold_118_ctg1 unplaced-scaffold na na JAGGDV010000056.1 <> na Primary Assembly 14751 na scaffold_119_ctg1 unplaced-scaffold na na JAGGDV010000057.1 <> na Primary Assembly 14275 na scaffold_120_ctg1 unplaced-scaffold na na JAGGDV010000058.1 <> na Primary Assembly 13790 na scaffold_121_ctg1 unplaced-scaffold na na JAGGDV010000059.1 <> na Primary Assembly 13783 na scaffold_122_ctg1 unplaced-scaffold na na JAGGDV010000060.1 <> na Primary Assembly 13713 na scaffold_123_ctg1 unplaced-scaffold na na JAGGDV010000061.1 <> na Primary Assembly 12672 na scaffold_124_ctg1 unplaced-scaffold na na JAGGDV010000062.1 <> na Primary Assembly 12642 na scaffold_125_ctg1 unplaced-scaffold na na JAGGDV010000063.1 <> na Primary Assembly 12290 na scaffold_126_ctg1 unplaced-scaffold na na JAGGDV010000064.1 <> na Primary Assembly 11221 na scaffold_127_ctg1 unplaced-scaffold na na JAGGDV010000065.1 <> na Primary Assembly 11062 na scaffold_128_ctg1 unplaced-scaffold na na JAGGDV010000066.1 <> na Primary Assembly 10401 na scaffold_129_ctg1 unplaced-scaffold na na JAGGDV010000067.1 <> na Primary Assembly 10475 na scaffold_130_ctg1 unplaced-scaffold na na JAGGDV010000068.1 <> na Primary Assembly 9911 na scaffold_131_ctg1 unplaced-scaffold na na JAGGDV010000069.1 <> na Primary Assembly 9126 na scaffold_132_ctg1 unplaced-scaffold na na JAGGDV010000070.1 <> na Primary Assembly 8717 na scaffold_133_ctg1 unplaced-scaffold na na JAGGDV010000071.1 <> na Primary Assembly 7489 na scaffold_134_ctg1 unplaced-scaffold na na JAGGDV010000072.1 <> na Primary Assembly 7045 na scaffold_135_ctg1 unplaced-scaffold na na JAGGDV010000073.1 <> na Primary Assembly 5917 na scaffold_136_ctg1 unplaced-scaffold na na JAGGDV010000074.1 <> na Primary Assembly 5632 na scaffold_137_ctg1 unplaced-scaffold na na JAGGDV010000075.1 <> na Primary Assembly 4867 na scaffold_138_ctg1 unplaced-scaffold na na JAGGDV010000076.1 <> na Primary Assembly 4675 na scaffold_139_ctg1 unplaced-scaffold na na JAGGDV010000077.1 <> na Primary Assembly 4466 na scaffold_140_ctg1 unplaced-scaffold na na JAGGDV010000078.1 <> na Primary Assembly 4030 na scaffold_141_ctg1 unplaced-scaffold na na JAGGDV010000079.1 <> na Primary Assembly 3688 na scaffold_51_ctg1_1 unplaced-scaffold na na JAGGDV010000081.1 <> na Primary Assembly 89009 na scaffold_56_ctg1 unplaced-scaffold na na JAGGDV010000082.1 <> na Primary Assembly 82575 na scaffold_56_ctg1_1 unplaced-scaffold na na JAGGDV010000083.1 <> na Primary Assembly 82819 na scaffold_60_ctg1 unplaced-scaffold na na JAGGDV010000084.1 <> na Primary Assembly 126891 na scaffold_66_ctg1 unplaced-scaffold na na JAGGDV010000085.1 <> na Primary Assembly 100547 na scaffold_73_ctg1 unplaced-scaffold na na JAGGDV010000086.1 <> na Primary Assembly 62101 na scaffold_74_ctg1 unplaced-scaffold na na JAGGDV010000087.1 <> na Primary Assembly 58834 na scaffold_75_ctg1 unplaced-scaffold na na JAGGDV010000088.1 <> na Primary Assembly 58357 na scaffold_77_ctg1 unplaced-scaffold na na JAGGDV010000089.1 <> na Primary Assembly 57659 na scaffold_78_ctg1 unplaced-scaffold na na JAGGDV010000090.1 <> na Primary Assembly 54557 na scaffold_79_ctg1 unplaced-scaffold na na JAGGDV010000091.1 <> na Primary Assembly 52613 na scaffold_80_ctg1 unplaced-scaffold na na JAGGDV010000092.1 <> na Primary Assembly 47600 na scaffold_81_ctg1 unplaced-scaffold na na JAGGDV010000093.1 <> na Primary Assembly 47595 na scaffold_84_ctg1 unplaced-scaffold na na JAGGDV010000094.1 <> na Primary Assembly 46146 na scaffold_85_ctg1 unplaced-scaffold na na JAGGDV010000095.1 <> na Primary Assembly 45712 na scaffold_86_ctg1 unplaced-scaffold na na JAGGDV010000096.1 <> na Primary Assembly 42690 na scaffold_88_ctg1 unplaced-scaffold na na JAGGDV010000097.1 <> na Primary Assembly 40901 na scaffold_89_ctg1 unplaced-scaffold na na JAGGDV010000098.1 <> na Primary Assembly 40411 na scaffold_90_ctg1 unplaced-scaffold na na JAGGDV010000099.1 <> na Primary Assembly 38829 na scaffold_91_ctg1 unplaced-scaffold na na JAGGDV010000100.1 <> na Primary Assembly 36817 na scaffold_93_ctg1 unplaced-scaffold na na JAGGDV010000101.1 <> na Primary Assembly 32336 na scaffold_94_ctg1 unplaced-scaffold na na JAGGDV010000102.1 <> na Primary Assembly 29512 na scaffold_95_ctg1 unplaced-scaffold na na JAGGDV010000103.1 <> na Primary Assembly 29206 na scaffold_96_ctg1 unplaced-scaffold na na JAGGDV010000104.1 <> na Primary Assembly 28903 na scaffold_97_ctg1 unplaced-scaffold na na JAGGDV010000105.1 <> na Primary Assembly 27248 na scaffold_98_ctg1 unplaced-scaffold na na JAGGDV010000106.1 <> na Primary Assembly 27587 na bPluApr1_MT assembled-molecule MT Mitochondrion CM030045.1 <> na non-nuclear 20624 na