# Assembly name: bPhoRub2.pri # Organism name: Phoenicopterus ruber ruber (American flamingo) # Isolate: bPhoRub2 # Sex: female # Taxid: 9218 # BioSample: SAMN12614931 # BioProject: PRJNA561888 # Submitter: Vertebrate Genomes Project # Date: 2019-12-31 # Assembly type: haploid (principal pseudohaplotype of diploid) # Release type: major # Assembly level: Chromosome # Genome representation: full # WGS project: WNMK01 # Assembly method: FALCON v. DNANexus 1.9.0; FALCON-Unzip v. DNANexus 1.0.6; purge_haplotigs v. v1.0.3+ 1.Nov.2018; scaff10x v. 4.1.0; Bionano Solve DLS v. 3.2.1; Salsa HiC v. 2.2; Arrow smrtanalysis Pacbio polishing & gap filling v. 6.0.0.47841; longranger align v. 2.2.2; freebayes Illumina polishing v. 1.3; gEVAL manual curation v. 2019-08-13; VGP assembly pipeline individual v. 1.5 # Expected final version: no # Genome coverage: 61.27x # Sequencing technology: PacBio Sequel I CLR; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS # RefSeq category: Representative Genome # GenBank assembly accession: GCA_009819775.1 # Linked assembly: GCA_009819805.1 (alternate pseudohaplotype of diploid) # ## Assembly-Units: ## GenBank Unit Accession RefSeq Unit Accession Assembly-Unit name ## GCA_009819785.1 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_scaffold_1 assembled-molecule 1 Chromosome CM020215.1 <> na Primary Assembly 220917696 na Super_scaffold_5 assembled-molecule 2 Chromosome CM020216.1 <> na Primary Assembly 171127175 na Super_scaffold_2 assembled-molecule 3 Chromosome CM020217.1 <> na Primary Assembly 128783069 na Super_scaffold_4 assembled-molecule 4 Chromosome CM020218.1 <> na Primary Assembly 85472901 na Super_scaffold_6 assembled-molecule 5 Chromosome CM020219.1 <> na Primary Assembly 72965497 na Super_scaffold_9 assembled-molecule 6 Chromosome CM020220.1 <> na Primary Assembly 44348279 na Super_scaffold_13 assembled-molecule 7 Chromosome CM020221.1 <> na Primary Assembly 41910591 na Super_scaffold_14 assembled-molecule 8 Chromosome CM020222.1 <> na Primary Assembly 36875798 na Super_scaffold_7 assembled-molecule 9 Chromosome CM020223.1 <> na Primary Assembly 30482833 na Super_scaffold_15 assembled-molecule 10 Chromosome CM020224.1 <> na Primary Assembly 25215434 na Super_scaffold_16 assembled-molecule 11 Chromosome CM020225.1 <> na Primary Assembly 25172789 na Super_scaffold_17 assembled-molecule 12 Chromosome CM020226.1 <> na Primary Assembly 24748608 na Super_scaffold_8 assembled-molecule 13 Chromosome CM020227.1 <> na Primary Assembly 24188801 na Super_scaffold_19 assembled-molecule 14 Chromosome CM020228.1 <> na Primary Assembly 22543722 na Super_scaffold_11 assembled-molecule 15 Chromosome CM020229.1 <> na Primary Assembly 19967178 na Super_scaffold_20 assembled-molecule 16 Chromosome CM020230.1 <> na Primary Assembly 19134162 na Super_scaffold_21 assembled-molecule 17 Chromosome CM020231.1 <> na Primary Assembly 17028469 na Super_scaffold_22 assembled-molecule 18 Chromosome CM020232.1 <> na Primary Assembly 14700981 na Super_scaffold_12 assembled-molecule 19 Chromosome CM020233.1 <> na Primary Assembly 13522813 na Super_scaffold_23 assembled-molecule 20 Chromosome CM020234.1 <> na Primary Assembly 13182719 na Super_scaffold_24 assembled-molecule 21 Chromosome CM020235.1 <> na Primary Assembly 10132503 na Super_scaffold_25 assembled-molecule 22 Chromosome CM020236.1 <> na Primary Assembly 8625483 na Super_scaffold_26 assembled-molecule 23 Chromosome CM020237.1 <> na Primary Assembly 8285203 na Super_scaffold_27 assembled-molecule 24 Chromosome CM020238.1 <> na Primary Assembly 7920138 na Super_scaffold_10 assembled-molecule 25 Chromosome CM020239.1 <> na Primary Assembly 7909060 na Super_scaffold_28 assembled-molecule 26 Chromosome CM020240.1 <> na Primary Assembly 6567436 na Super_scaffold_29 assembled-molecule 27 Chromosome CM020241.1 <> na Primary Assembly 6189342 na Super_scaffold_30 assembled-molecule 28 Chromosome CM020242.1 <> na Primary Assembly 3591324 na Super_scaffold_31 assembled-molecule 29 Chromosome CM020243.1 <> na Primary Assembly 2584745 na Super_scaffold_32 assembled-molecule 30 Chromosome CM020244.1 <> na Primary Assembly 1031042 na Super_scaffold_33 assembled-molecule 31 Chromosome CM020245.1 <> na Primary Assembly 611155 na Super_scaffold_18 assembled-molecule W Chromosome CM020247.1 <> na Primary Assembly 34240104 na Super_scaffold_3 assembled-molecule Z Chromosome CM020246.1 <> na Primary Assembly 86708642 na scaffold_101_arrow_ctg1 unplaced-scaffold na na WNMK01000034.1 <> na Primary Assembly 26303 na scaffold_102_arrow_ctg1 unplaced-scaffold na na WNMK01000035.1 <> na Primary Assembly 25348 na scaffold_104_arrow_ctg1 unplaced-scaffold na na WNMK01000036.1 <> na Primary Assembly 23163 na scaffold_105_arrow_ctg1 unplaced-scaffold na na WNMK01000037.1 <> na Primary Assembly 22849 na scaffold_106_arrow_ctg1 unplaced-scaffold na na WNMK01000038.1 <> na Primary Assembly 22045 na scaffold_107_arrow_ctg1 unplaced-scaffold na na WNMK01000039.1 <> na Primary Assembly 21844 na scaffold_108_arrow_ctg1 unplaced-scaffold na na WNMK01000040.1 <> na Primary Assembly 21581 na scaffold_109_arrow_ctg1 unplaced-scaffold na na WNMK01000041.1 <> na Primary Assembly 21069 na scaffold_110_arrow_ctg1 unplaced-scaffold na na WNMK01000042.1 <> na Primary Assembly 21126 na scaffold_111_arrow_ctg1 unplaced-scaffold na na WNMK01000043.1 <> na Primary Assembly 20767 na scaffold_112_arrow_ctg1 unplaced-scaffold na na WNMK01000044.1 <> na Primary Assembly 15875 na scaffold_113_arrow_ctg1 unplaced-scaffold na na WNMK01000045.1 <> na Primary Assembly 1822 na scaffold_34_arrow_ctg1 unplaced-scaffold na na WNMK01000046.1 <> na Primary Assembly 1471528 na scaffold_39_arrow_ctg1 unplaced-scaffold na na WNMK01000047.1 <> na Primary Assembly 844648 na scaffold_40_arrow_ctg1 unplaced-scaffold na na WNMK01000048.1 <> na Primary Assembly 811925 na scaffold_41_arrow_ctg1 unplaced-scaffold na na WNMK01000049.1 <> na Primary Assembly 788739 na scaffold_43_arrow_ctg1 unplaced-scaffold na na WNMK01000050.1 <> na Primary Assembly 578335 na scaffold_44_arrow_ctg1 unplaced-scaffold na na WNMK01000051.1 <> na Primary Assembly 576617 na scaffold_45_arrow_ctg1 unplaced-scaffold na na WNMK01000052.1 <> na Primary Assembly 496235 na scaffold_46_arrow_ctg1 unplaced-scaffold na na WNMK01000053.1 <> na Primary Assembly 495873 na scaffold_47_arrow_ctg1 unplaced-scaffold na na WNMK01000054.1 <> na Primary Assembly 429657 na scaffold_49_arrow_ctg1 unplaced-scaffold na na WNMK01000055.1 <> na Primary Assembly 321407 na scaffold_53_arrow_ctg1 unplaced-scaffold na na WNMK01000056.1 <> na Primary Assembly 245941 na scaffold_54_arrow_ctg1 unplaced-scaffold na na WNMK01000057.1 <> na Primary Assembly 243284 na scaffold_59_arrow_ctg1 unplaced-scaffold na na WNMK01000058.1 <> na Primary Assembly 147072 na scaffold_60_arrow_ctg1 unplaced-scaffold na na WNMK01000059.1 <> na Primary Assembly 135752 na scaffold_62_arrow_ctg1 unplaced-scaffold na na WNMK01000060.1 <> na Primary Assembly 119630 na scaffold_63_arrow_ctg1 unplaced-scaffold na na WNMK01000061.1 <> na Primary Assembly 115899 na scaffold_64_arrow_ctg1 unplaced-scaffold na na WNMK01000062.1 <> na Primary Assembly 114401 na scaffold_65_arrow_ctg1 unplaced-scaffold na na WNMK01000063.1 <> na Primary Assembly 110890 na scaffold_69_arrow_ctg1 unplaced-scaffold na na WNMK01000064.1 <> na Primary Assembly 87002 na scaffold_70_arrow_ctg1 unplaced-scaffold na na WNMK01000065.1 <> na Primary Assembly 86219 na scaffold_71_arrow_ctg1 unplaced-scaffold na na WNMK01000066.1 <> na Primary Assembly 84247 na scaffold_75_arrow_ctg1 unplaced-scaffold na na WNMK01000067.1 <> na Primary Assembly 58843 na scaffold_76_arrow_ctg1 unplaced-scaffold na na WNMK01000068.1 <> na Primary Assembly 54787 na scaffold_77_arrow_ctg1 unplaced-scaffold na na WNMK01000069.1 <> na Primary Assembly 53648 na scaffold_78_arrow_ctg1 unplaced-scaffold na na WNMK01000070.1 <> na Primary Assembly 52090 na scaffold_79_arrow_ctg1 unplaced-scaffold na na WNMK01000071.1 <> na Primary Assembly 49914 na scaffold_80_arrow_ctg1 unplaced-scaffold na na WNMK01000072.1 <> na Primary Assembly 46879 na scaffold_81_arrow_ctg1 unplaced-scaffold na na WNMK01000073.1 <> na Primary Assembly 44402 na scaffold_82_arrow_ctg1 unplaced-scaffold na na WNMK01000074.1 <> na Primary Assembly 43474 na scaffold_83_arrow_ctg1 unplaced-scaffold na na WNMK01000075.1 <> na Primary Assembly 43435 na scaffold_84_arrow_ctg1 unplaced-scaffold na na WNMK01000076.1 <> na Primary Assembly 43411 na scaffold_85_arrow_ctg1 unplaced-scaffold na na WNMK01000077.1 <> na Primary Assembly 43326 na scaffold_86_arrow_ctg1 unplaced-scaffold na na WNMK01000078.1 <> na Primary Assembly 42550 na scaffold_87_arrow_ctg1 unplaced-scaffold na na WNMK01000079.1 <> na Primary Assembly 42277 na scaffold_88_arrow_ctg1 unplaced-scaffold na na WNMK01000080.1 <> na Primary Assembly 40922 na scaffold_89_arrow_ctg1 unplaced-scaffold na na WNMK01000081.1 <> na Primary Assembly 37742 na scaffold_90_arrow_ctg1 unplaced-scaffold na na WNMK01000082.1 <> na Primary Assembly 37739 na scaffold_91_arrow_ctg1 unplaced-scaffold na na WNMK01000083.1 <> na Primary Assembly 35154 na scaffold_92_arrow_ctg1 unplaced-scaffold na na WNMK01000084.1 <> na Primary Assembly 34449 na scaffold_93_arrow_ctg1 unplaced-scaffold na na WNMK01000085.1 <> na Primary Assembly 34353 na scaffold_94_arrow_ctg1 unplaced-scaffold na na WNMK01000086.1 <> na Primary Assembly 32586 na scaffold_95_arrow_ctg1 unplaced-scaffold na na WNMK01000087.1 <> na Primary Assembly 32589 na scaffold_96_arrow_ctg1 unplaced-scaffold na na WNMK01000088.1 <> na Primary Assembly 31238 na scaffold_98_arrow_ctg1 unplaced-scaffold na na WNMK01000089.1 <> na Primary Assembly 28751 na scaffold_99_arrow_ctg1 unplaced-scaffold na na WNMK01000090.1 <> na Primary Assembly 27588 na