# Assembly name: bTheCae1.pri.cur # Organism name: Theristicus caerulescens (plumbeous ibis) # Isolate: bTheCae1 # Sex: female # Taxid: 1118847 # BioSample: SAMN22550094 # BioProject: PRJNA774297 # Submitter: Vertebrate Genomes Project # Date: 2021-11-05 # Assembly type: haploid (principal pseudohaplotype of diploid) # Release type: major # Assembly level: Chromosome # Genome representation: full # WGS project: JAJGSR01 # Assembly method: FALCON v. 2018.31.08-03.06; FALCON unzip v. 7.0.1.66975; purge_dups v. 1.2.5; scaff10X v. 4.1.0; Bionano solve v. 3.4.0; Salsa2 v. 2.2; Arrow polishing pbcpp v. 1.9.0.1; Longranger Align v. 2.2.2; Deep variant polishing v. 1.1.0; gEVAL manual curation v. 2021-05-25; VGP pipeline v. 1.7 # Expected final version: no # Genome coverage: 123.5x # Sequencing technology: PacBio Sequel CLR; Illumina NovaSeq; Bionano Genomics Saphyr DLS; Arima Genomics Hi-C v1 # RefSeq category: Representative Genome # GenBank assembly accession: GCA_020745775.1 # Linked assembly: GCA_020745805.1 (alternate pseudohaplotype of diploid) # ## Assembly-Units: ## GenBank Unit Accession RefSeq Unit Accession Assembly-Unit name ## GCA_020745785.1 Primary Assembly ## GCA_020745795.1 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 CM036558.1 <> na Primary Assembly 168284945 na SUPER_2 assembled-molecule 2 Chromosome CM036559.1 <> na Primary Assembly 133041394 na SUPER_3 assembled-molecule 3 Chromosome CM036560.1 <> na Primary Assembly 128208909 na SUPER_4 assembled-molecule 4 Chromosome CM036561.1 <> na Primary Assembly 128006814 na SUPER_5 assembled-molecule 5 Chromosome CM036562.1 <> na Primary Assembly 101368359 na SUPER_6 assembled-molecule 6 Chromosome CM036563.1 <> na Primary Assembly 84850706 na SUPER_7 assembled-molecule 7 Chromosome CM036564.1 <> na Primary Assembly 72377700 na SUPER_8 assembled-molecule 8 Chromosome CM036565.1 <> na Primary Assembly 54452255 na SUPER_9 assembled-molecule 9 Chromosome CM036566.1 <> na Primary Assembly 50206634 na SUPER_10 assembled-molecule 10 Chromosome CM036567.1 <> na Primary Assembly 24370211 na SUPER_11 assembled-molecule 11 Chromosome CM036568.1 <> na Primary Assembly 22271904 na SUPER_12 assembled-molecule 12 Chromosome CM036569.1 <> na Primary Assembly 17635343 na SUPER_13 assembled-molecule 13 Chromosome CM036570.1 <> na Primary Assembly 16908821 na SUPER_14 assembled-molecule 14 Chromosome CM036571.1 <> na Primary Assembly 14861638 na SUPER_15 assembled-molecule 15 Chromosome CM036572.1 <> na Primary Assembly 13591902 na SUPER_16 assembled-molecule 16 Chromosome CM036573.1 <> na Primary Assembly 13316782 na SUPER_17 assembled-molecule 17 Chromosome CM036574.1 <> na Primary Assembly 9770385 na SUPER_18 assembled-molecule 18 Chromosome CM036575.1 <> na Primary Assembly 8860372 na SUPER_19 assembled-molecule 19 Chromosome CM036576.1 <> na Primary Assembly 8611096 na SUPER_20 assembled-molecule 20 Chromosome CM036577.1 <> na Primary Assembly 8264496 na SUPER_21 assembled-molecule 21 Chromosome CM036578.1 <> na Primary Assembly 7825108 na SUPER_22 assembled-molecule 22 Chromosome CM036579.1 <> na Primary Assembly 6410131 na SUPER_23 assembled-molecule 23 Chromosome CM036580.1 <> na Primary Assembly 4676723 na SUPER_24 assembled-molecule 24 Chromosome CM036581.1 <> na Primary Assembly 3498670 na SUPER_25 assembled-molecule 25 Chromosome CM036582.1 <> na Primary Assembly 1126219 na SUPER_Z assembled-molecule Z Chromosome CM036583.1 <> na Primary Assembly 92929705 na scaffold_100_ctg1 unplaced-scaffold na na JAJGSR010000002.1 <> na Primary Assembly 30153 na scaffold_101_ctg1 unplaced-scaffold na na JAJGSR010000003.1 <> na Primary Assembly 27711 na scaffold_102_ctg1 unplaced-scaffold na na JAJGSR010000004.1 <> na Primary Assembly 27211 na scaffold_103_ctg1 unplaced-scaffold na na JAJGSR010000005.1 <> na Primary Assembly 27066 na scaffold_104_ctg1 unplaced-scaffold na na JAJGSR010000006.1 <> na Primary Assembly 25986 na scaffold_106_ctg1 unplaced-scaffold na na JAJGSR010000007.1 <> na Primary Assembly 22216 na scaffold_107_ctg1 unplaced-scaffold na na JAJGSR010000008.1 <> na Primary Assembly 18876 na scaffold_108_ctg1 unplaced-scaffold na na JAJGSR010000009.1 <> na Primary Assembly 9444 na scaffold_109_ctg1 unplaced-scaffold na na JAJGSR010000010.1 <> na Primary Assembly 9368 na scaffold_110_ctg1 unplaced-scaffold na na JAJGSR010000012.1 <> na Primary Assembly 7937 na scaffold_111_ctg1 unplaced-scaffold na na JAJGSR010000013.1 <> na Primary Assembly 6216 na scaffold_112_ctg1 unplaced-scaffold na na JAJGSR010000014.1 <> na Primary Assembly 4648 na scaffold_35_ctg1 unplaced-scaffold na na JAJGSR010000032.1 <> na Primary Assembly 815759 na scaffold_37_ctg1 unplaced-scaffold na na JAJGSR010000033.1 <> na Primary Assembly 773329 na scaffold_38_ctg1 unplaced-scaffold na na JAJGSR010000034.1 <> na Primary Assembly 664655 na scaffold_42_ctg1 unplaced-scaffold na na JAJGSR010000036.1 <> na Primary Assembly 569392 na scaffold_44_ctg1 unplaced-scaffold na na JAJGSR010000038.1 <> na Primary Assembly 503957 na scaffold_46_ctg1 unplaced-scaffold na na JAJGSR010000039.1 <> na Primary Assembly 357784 na scaffold_47_ctg1 unplaced-scaffold na na JAJGSR010000040.1 <> na Primary Assembly 238210 na scaffold_50_ctg1 unplaced-scaffold na na JAJGSR010000042.1 <> na Primary Assembly 205004 na scaffold_51_ctg1 unplaced-scaffold na na JAJGSR010000043.1 <> na Primary Assembly 187062 na scaffold_52_ctg1 unplaced-scaffold na na JAJGSR010000044.1 <> na Primary Assembly 178899 na scaffold_54_ctg1 unplaced-scaffold na na JAJGSR010000045.1 <> na Primary Assembly 160293 na scaffold_55_ctg1 unplaced-scaffold na na JAJGSR010000046.1 <> na Primary Assembly 154474 na scaffold_56_ctg1 unplaced-scaffold na na JAJGSR010000047.1 <> na Primary Assembly 144508 na scaffold_57_ctg1 unplaced-scaffold na na JAJGSR010000048.1 <> na Primary Assembly 143174 na scaffold_59_ctg1 unplaced-scaffold na na JAJGSR010000049.1 <> na Primary Assembly 134545 na scaffold_60_ctg1 unplaced-scaffold na na JAJGSR010000051.1 <> na Primary Assembly 133775 na scaffold_62_ctg1 unplaced-scaffold na na JAJGSR010000052.1 <> na Primary Assembly 119690 na scaffold_63_ctg1 unplaced-scaffold na na JAJGSR010000053.1 <> na Primary Assembly 115535 na scaffold_64_ctg1 unplaced-scaffold na na JAJGSR010000054.1 <> na Primary Assembly 109763 na scaffold_65_ctg1 unplaced-scaffold na na JAJGSR010000055.1 <> na Primary Assembly 105676 na scaffold_66_ctg1 unplaced-scaffold na na JAJGSR010000056.1 <> na Primary Assembly 101765 na scaffold_68_ctg1 unplaced-scaffold na na JAJGSR010000057.1 <> na Primary Assembly 84229 na scaffold_6A unplaced-scaffold na na JAJGSR010000059.1 <> na Primary Assembly 64124 na scaffold_70_ctg1 unplaced-scaffold na na JAJGSR010000060.1 <> na Primary Assembly 74761 na scaffold_71_ctg1 unplaced-scaffold na na JAJGSR010000061.1 <> na Primary Assembly 73781 na scaffold_72_ctg1 unplaced-scaffold na na JAJGSR010000062.1 <> na Primary Assembly 67927 na scaffold_73_ctg1 unplaced-scaffold na na JAJGSR010000063.1 <> na Primary Assembly 66877 na scaffold_74_ctg1 unplaced-scaffold na na JAJGSR010000064.1 <> na Primary Assembly 65311 na scaffold_75_ctg1 unplaced-scaffold na na JAJGSR010000065.1 <> na Primary Assembly 65169 na scaffold_76_ctg1 unplaced-scaffold na na JAJGSR010000066.1 <> na Primary Assembly 61784 na scaffold_78_ctg1 unplaced-scaffold na na JAJGSR010000067.1 <> na Primary Assembly 59804 na scaffold_79_ctg1 unplaced-scaffold na na JAJGSR010000068.1 <> na Primary Assembly 57864 na scaffold_80_ctg1 unplaced-scaffold na na JAJGSR010000070.1 <> na Primary Assembly 56083 na scaffold_81_ctg1 unplaced-scaffold na na JAJGSR010000071.1 <> na Primary Assembly 54253 na scaffold_82_ctg1 unplaced-scaffold na na JAJGSR010000072.1 <> na Primary Assembly 53977 na scaffold_84_ctg1 unplaced-scaffold na na JAJGSR010000073.1 <> na Primary Assembly 52585 na scaffold_85_ctg1 unplaced-scaffold na na JAJGSR010000074.1 <> na Primary Assembly 51861 na scaffold_86_ctg1 unplaced-scaffold na na JAJGSR010000075.1 <> na Primary Assembly 49779 na scaffold_87_ctg1 unplaced-scaffold na na JAJGSR010000076.1 <> na Primary Assembly 49088 na scaffold_89_ctg1 unplaced-scaffold na na JAJGSR010000077.1 <> na Primary Assembly 45914 na scaffold_90_ctg1 unplaced-scaffold na na JAJGSR010000079.1 <> na Primary Assembly 44514 na scaffold_91_ctg1 unplaced-scaffold na na JAJGSR010000080.1 <> na Primary Assembly 43088 na scaffold_92_ctg1 unplaced-scaffold na na JAJGSR010000081.1 <> na Primary Assembly 39344 na scaffold_94_ctg1 unplaced-scaffold na na JAJGSR010000082.1 <> na Primary Assembly 38543 na scaffold_95_ctg1 unplaced-scaffold na na JAJGSR010000083.1 <> na Primary Assembly 37727 na scaffold_96_ctg1 unplaced-scaffold na na JAJGSR010000084.1 <> na Primary Assembly 35896 na scaffold_97_ctg1 unplaced-scaffold na na JAJGSR010000085.1 <> na Primary Assembly 34165 na scaffold_98_ctg1 unplaced-scaffold na na JAJGSR010000086.1 <> na Primary Assembly 32935 na scaffold_99_ctg1 unplaced-scaffold na na JAJGSR010000087.1 <> na Primary Assembly 30963 na bTheCae1.tig00000001_polish2_10x2 assembled-molecule MT Mitochondrion CM036585.1 <> na non-nuclear 19114 na