# Assembly name: bCicMag1.pri # Organism name: Ciconia maguari (birds) # Isolate: bCicMag1 # Sex: female # Taxid: 52777 # BioSample: SAMN18353822 # BioProject: PRJNA715733 # 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: JAGFVN01 # 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: 88.32x # Sequencing technology: PacBio Sequel II CLR; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS # RefSeq category: Representative Genome # GenBank assembly accession: GCA_017639555.1 # Linked assembly: GCA_017639665.1 (alternate pseudohaplotype of diploid) # ## Assembly-Units: ## GenBank Unit Accession RefSeq Unit Accession Assembly-Unit name ## GCA_017639565.1 Primary Assembly ## GCA_017639575.1 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 CM030193.1 <> na Primary Assembly 220367150 na SUPER_2 assembled-molecule 2 Chromosome CM030194.1 <> na Primary Assembly 169105867 na SUPER_3 assembled-molecule 3 Chromosome CM030195.1 <> na Primary Assembly 128636905 na SUPER_4 assembled-molecule 4 Chromosome CM030196.1 <> na Primary Assembly 85554746 na SUPER_5 assembled-molecule 5 Chromosome CM030197.1 <> na Primary Assembly 72610546 na SUPER_6 assembled-molecule 6 Chromosome CM030198.1 <> na Primary Assembly 67877534 na SUPER_7 assembled-molecule 7 Chromosome CM030199.1 <> na Primary Assembly 67395635 na SUPER_8 assembled-molecule 8 Chromosome CM030200.1 <> na Primary Assembly 46749558 na SUPER_9 assembled-molecule 9 Chromosome CM030201.1 <> na Primary Assembly 44753372 na SUPER_10 assembled-molecule 10 Chromosome CM030202.1 <> na Primary Assembly 25274542 na SUPER_11 assembled-molecule 11 Chromosome CM030203.1 <> na Primary Assembly 24993763 na SUPER_12 assembled-molecule 12 Chromosome CM030204.1 <> na Primary Assembly 19939060 na SUPER_13 assembled-molecule 13 Chromosome CM030205.1 <> na Primary Assembly 18180045 na SUPER_14 assembled-molecule 14 Chromosome CM030206.1 <> na Primary Assembly 17172363 na SUPER_15 assembled-molecule 15 Chromosome CM030207.1 <> na Primary Assembly 14421582 na SUPER_16 assembled-molecule 16 Chromosome CM030208.1 <> na Primary Assembly 13396429 na SUPER_17 assembled-molecule 17 Chromosome CM030209.1 <> na Primary Assembly 13209066 na SUPER_18 assembled-molecule 18 Chromosome CM030210.1 <> na Primary Assembly 9885871 na SUPER_19 assembled-molecule 19 Chromosome CM030211.1 <> na Primary Assembly 8611159 na SUPER_20 assembled-molecule 20 Chromosome CM030212.1 <> na Primary Assembly 8535332 na SUPER_21 assembled-molecule 21 Chromosome CM030213.1 <> na Primary Assembly 8076657 na SUPER_22 assembled-molecule 22 Chromosome CM030214.1 <> na Primary Assembly 7934821 na SUPER_23 assembled-molecule 23 Chromosome CM030215.1 <> na Primary Assembly 6731888 na SUPER_24 assembled-molecule 24 Chromosome CM030216.1 <> na Primary Assembly 6397896 na SUPER_25 assembled-molecule 25 Chromosome CM030217.1 <> na Primary Assembly 3877596 na SUPER_26 assembled-molecule 26 Chromosome CM030218.1 <> na Primary Assembly 3622103 na SUPER_27 assembled-molecule 27 Chromosome CM030219.1 <> na Primary Assembly 916432 na SUPER_28 assembled-molecule 28 Chromosome CM030220.1 <> na Primary Assembly 405219 na SUPER_29 assembled-molecule 29 Chromosome CM030221.1 <> na Primary Assembly 400047 na SUPER_W assembled-molecule W Chromosome CM030222.1 <> na Primary Assembly 19818116 na SUPER_Z assembled-molecule Z Chromosome CM030223.1 <> na Primary Assembly 87145273 na SUPER_W_unloc_1 unlocalized-scaffold W Chromosome JAGFVN010000081.1 <> na Primary Assembly 11743129 na scaffold_100_ctg1 unplaced-scaffold na na JAGFVN010000001.1 <> na Primary Assembly 35290 na scaffold_101_ctg1 unplaced-scaffold na na JAGFVN010000002.1 <> na Primary Assembly 35366 na scaffold_102_ctg1 unplaced-scaffold na na JAGFVN010000003.1 <> na Primary Assembly 34550 na scaffold_103_ctg1 unplaced-scaffold na na JAGFVN010000004.1 <> na Primary Assembly 32929 na scaffold_104_ctg1 unplaced-scaffold na na JAGFVN010000005.1 <> na Primary Assembly 32936 na scaffold_105_ctg1 unplaced-scaffold na na JAGFVN010000006.1 <> na Primary Assembly 31669 na scaffold_106_ctg1 unplaced-scaffold na na JAGFVN010000007.1 <> na Primary Assembly 31034 na scaffold_107_ctg1 unplaced-scaffold na na JAGFVN010000008.1 <> na Primary Assembly 29395 na scaffold_108_ctg1 unplaced-scaffold na na JAGFVN010000009.1 <> na Primary Assembly 27780 na scaffold_109_ctg1 unplaced-scaffold na na JAGFVN010000010.1 <> na Primary Assembly 25814 na scaffold_110_ctg1 unplaced-scaffold na na JAGFVN010000012.1 <> na Primary Assembly 24929 na scaffold_111_ctg1 unplaced-scaffold na na JAGFVN010000013.1 <> na Primary Assembly 24980 na scaffold_112_ctg1 unplaced-scaffold na na JAGFVN010000014.1 <> na Primary Assembly 23975 na scaffold_113_ctg1 unplaced-scaffold na na JAGFVN010000015.1 <> na Primary Assembly 23905 na scaffold_114_ctg1 unplaced-scaffold na na JAGFVN010000016.1 <> na Primary Assembly 22564 na scaffold_115_ctg1 unplaced-scaffold na na JAGFVN010000017.1 <> na Primary Assembly 22524 na scaffold_116_ctg1 unplaced-scaffold na na JAGFVN010000018.1 <> na Primary Assembly 21792 na scaffold_117_ctg1 unplaced-scaffold na na JAGFVN010000019.1 <> na Primary Assembly 21565 na scaffold_118_ctg1 unplaced-scaffold na na JAGFVN010000020.1 <> na Primary Assembly 21158 na scaffold_119_ctg1 unplaced-scaffold na na JAGFVN010000021.1 <> na Primary Assembly 21221 na scaffold_120_ctg1 unplaced-scaffold na na JAGFVN010000023.1 <> na Primary Assembly 20325 na scaffold_121_ctg1 unplaced-scaffold na na JAGFVN010000024.1 <> na Primary Assembly 20019 na scaffold_122_ctg1 unplaced-scaffold na na JAGFVN010000025.1 <> na Primary Assembly 19613 na scaffold_123_ctg1 unplaced-scaffold na na JAGFVN010000026.1 <> na Primary Assembly 19162 na scaffold_124_ctg1 unplaced-scaffold na na JAGFVN010000027.1 <> na Primary Assembly 18145 na scaffold_125_ctg1 unplaced-scaffold na na JAGFVN010000028.1 <> na Primary Assembly 18162 na scaffold_126_ctg1 unplaced-scaffold na na JAGFVN010000029.1 <> na Primary Assembly 17991 na scaffold_127_ctg1 unplaced-scaffold na na JAGFVN010000030.1 <> na Primary Assembly 17861 na scaffold_128_ctg1 unplaced-scaffold na na JAGFVN010000031.1 <> na Primary Assembly 17835 na scaffold_129_ctg1 unplaced-scaffold na na JAGFVN010000032.1 <> na Primary Assembly 17096 na scaffold_130_ctg1 unplaced-scaffold na na JAGFVN010000034.1 <> na Primary Assembly 15684 na scaffold_131_ctg1 unplaced-scaffold na na JAGFVN010000035.1 <> na Primary Assembly 15135 na scaffold_132_ctg1 unplaced-scaffold na na JAGFVN010000036.1 <> na Primary Assembly 14931 na scaffold_134_ctg1 unplaced-scaffold na na JAGFVN010000037.1 <> na Primary Assembly 14629 na scaffold_135_ctg1 unplaced-scaffold na na JAGFVN010000038.1 <> na Primary Assembly 14014 na scaffold_136_ctg1 unplaced-scaffold na na JAGFVN010000039.1 <> na Primary Assembly 14527 na scaffold_137_ctg1 unplaced-scaffold na na JAGFVN010000040.1 <> na Primary Assembly 13211 na scaffold_138_ctg1 unplaced-scaffold na na JAGFVN010000041.1 <> na Primary Assembly 11998 na scaffold_139_ctg1 unplaced-scaffold na na JAGFVN010000042.1 <> na Primary Assembly 10554 na scaffold_140_ctg1 unplaced-scaffold na na JAGFVN010000044.1 <> na Primary Assembly 10493 na scaffold_141_ctg1 unplaced-scaffold na na JAGFVN010000045.1 <> na Primary Assembly 10869 na scaffold_142_ctg1 unplaced-scaffold na na JAGFVN010000046.1 <> na Primary Assembly 10338 na scaffold_143_ctg1 unplaced-scaffold na na JAGFVN010000047.1 <> na Primary Assembly 10298 na scaffold_144_ctg1 unplaced-scaffold na na JAGFVN010000048.1 <> na Primary Assembly 9710 na scaffold_145_ctg1 unplaced-scaffold na na JAGFVN010000049.1 <> na Primary Assembly 9020 na scaffold_146_ctg1 unplaced-scaffold na na JAGFVN010000050.1 <> na Primary Assembly 8619 na scaffold_147_ctg1 unplaced-scaffold na na JAGFVN010000051.1 <> na Primary Assembly 8378 na scaffold_148_ctg1 unplaced-scaffold na na JAGFVN010000052.1 <> na Primary Assembly 8033 na scaffold_149_ctg1 unplaced-scaffold na na JAGFVN010000053.1 <> na Primary Assembly 6842 na scaffold_150_ctg1 unplaced-scaffold na na JAGFVN010000055.1 <> na Primary Assembly 6838 na scaffold_151_ctg1 unplaced-scaffold na na JAGFVN010000056.1 <> na Primary Assembly 6693 na scaffold_152_ctg1 unplaced-scaffold na na JAGFVN010000057.1 <> na Primary Assembly 6397 na scaffold_153_ctg1 unplaced-scaffold na na JAGFVN010000058.1 <> na Primary Assembly 6334 na scaffold_154_ctg1 unplaced-scaffold na na JAGFVN010000059.1 <> na Primary Assembly 5972 na scaffold_155_ctg1 unplaced-scaffold na na JAGFVN010000060.1 <> na Primary Assembly 5737 na scaffold_156_ctg1 unplaced-scaffold na na JAGFVN010000061.1 <> na Primary Assembly 5656 na scaffold_157_ctg1 unplaced-scaffold na na JAGFVN010000062.1 <> na Primary Assembly 5331 na scaffold_158_ctg1 unplaced-scaffold na na JAGFVN010000063.1 <> na Primary Assembly 5243 na scaffold_159_ctg1 unplaced-scaffold na na JAGFVN010000064.1 <> na Primary Assembly 5234 na scaffold_160_ctg1 unplaced-scaffold na na JAGFVN010000066.1 <> na Primary Assembly 5095 na scaffold_161_ctg1 unplaced-scaffold na na JAGFVN010000067.1 <> na Primary Assembly 4924 na scaffold_162_ctg1 unplaced-scaffold na na JAGFVN010000068.1 <> na Primary Assembly 4741 na scaffold_163_ctg1 unplaced-scaffold na na JAGFVN010000069.1 <> na Primary Assembly 4697 na scaffold_164_ctg1 unplaced-scaffold na na JAGFVN010000070.1 <> na Primary Assembly 4057 na scaffold_165_ctg1 unplaced-scaffold na na JAGFVN010000071.1 <> na Primary Assembly 3840 na scaffold_166_ctg1 unplaced-scaffold na na JAGFVN010000072.1 <> na Primary Assembly 3582 na scaffold_167_ctg1 unplaced-scaffold na na JAGFVN010000073.1 <> na Primary Assembly 3498 na scaffold_168_ctg1 unplaced-scaffold na na JAGFVN010000074.1 <> na Primary Assembly 2739 na scaffold_169_ctg1 unplaced-scaffold na na JAGFVN010000075.1 <> na Primary Assembly 2631 na scaffold_170_ctg1 unplaced-scaffold na na JAGFVN010000076.1 <> na Primary Assembly 1208 na scaffold_2_ctg1 unplaced-scaffold na na JAGFVN010000090.1 <> na Primary Assembly 45671 na scaffold_46_ctg1 unplaced-scaffold na na JAGFVN010000098.1 <> na Primary Assembly 306223 na scaffold_47_ctg1 unplaced-scaffold na na JAGFVN010000099.1 <> na Primary Assembly 238560 na scaffold_48_ctg1 unplaced-scaffold na na JAGFVN010000100.1 <> na Primary Assembly 229115 na scaffold_49_ctg1 unplaced-scaffold na na JAGFVN010000101.1 <> na Primary Assembly 215275 na scaffold_50_ctg1 unplaced-scaffold na na JAGFVN010000102.1 <> na Primary Assembly 214632 na scaffold_51_ctg1 unplaced-scaffold na na JAGFVN010000103.1 <> na Primary Assembly 206759 na scaffold_52_ctg1 unplaced-scaffold na na JAGFVN010000104.1 <> na Primary Assembly 198115 na scaffold_53_ctg1 unplaced-scaffold na na JAGFVN010000105.1 <> na Primary Assembly 175997 na scaffold_54_ctg1 unplaced-scaffold na na JAGFVN010000106.1 <> na Primary Assembly 166753 na scaffold_55_ctg1 unplaced-scaffold na na JAGFVN010000107.1 <> na Primary Assembly 149559 na scaffold_56_ctg1 unplaced-scaffold na na JAGFVN010000108.1 <> na Primary Assembly 149429 na scaffold_57_ctg1 unplaced-scaffold na na JAGFVN010000109.1 <> na Primary Assembly 141301 na scaffold_59_ctg1 unplaced-scaffold na na JAGFVN010000110.1 <> na Primary Assembly 128549 na scaffold_61_ctg1 unplaced-scaffold na na JAGFVN010000112.1 <> na Primary Assembly 109470 na scaffold_63_ctg1 unplaced-scaffold na na JAGFVN010000113.1 <> na Primary Assembly 98603 na scaffold_64_ctg1 unplaced-scaffold na na JAGFVN010000114.1 <> na Primary Assembly 86675 na scaffold_65_ctg1 unplaced-scaffold na na JAGFVN010000115.1 <> na Primary Assembly 85114 na scaffold_66_ctg1 unplaced-scaffold na na JAGFVN010000116.1 <> na Primary Assembly 78687 na scaffold_67_ctg1 unplaced-scaffold na na JAGFVN010000117.1 <> na Primary Assembly 75705 na scaffold_69_ctg1 unplaced-scaffold na na JAGFVN010000118.1 <> na Primary Assembly 74634 na scaffold_70_ctg1 unplaced-scaffold na na JAGFVN010000121.1 <> na Primary Assembly 72698 na scaffold_71_ctg1 unplaced-scaffold na na JAGFVN010000122.1 <> na Primary Assembly 68259 na scaffold_72_ctg1 unplaced-scaffold na na JAGFVN010000123.1 <> na Primary Assembly 67741 na scaffold_74_ctg1 unplaced-scaffold na na JAGFVN010000124.1 <> na Primary Assembly 66065 na scaffold_75_ctg1 unplaced-scaffold na na JAGFVN010000125.1 <> na Primary Assembly 64781 na scaffold_76_ctg1 unplaced-scaffold na na JAGFVN010000126.1 <> na Primary Assembly 65151 na scaffold_77_ctg1 unplaced-scaffold na na JAGFVN010000127.1 <> na Primary Assembly 62722 na scaffold_78_ctg1 unplaced-scaffold na na JAGFVN010000128.1 <> na Primary Assembly 59033 na scaffold_79_ctg1 unplaced-scaffold na na JAGFVN010000129.1 <> na Primary Assembly 58537 na scaffold_80_ctg1 unplaced-scaffold na na JAGFVN010000131.1 <> na Primary Assembly 56870 na scaffold_81_ctg1 unplaced-scaffold na na JAGFVN010000132.1 <> na Primary Assembly 54343 na scaffold_82_ctg1 unplaced-scaffold na na JAGFVN010000133.1 <> na Primary Assembly 51316 na scaffold_83_ctg1 unplaced-scaffold na na JAGFVN010000134.1 <> na Primary Assembly 50403 na scaffold_84_ctg1 unplaced-scaffold na na JAGFVN010000135.1 <> na Primary Assembly 48288 na scaffold_85_ctg1 unplaced-scaffold na na JAGFVN010000136.1 <> na Primary Assembly 47669 na scaffold_86_ctg1 unplaced-scaffold na na JAGFVN010000137.1 <> na Primary Assembly 45117 na scaffold_87_ctg1 unplaced-scaffold na na JAGFVN010000138.1 <> na Primary Assembly 43263 na scaffold_88_ctg1 unplaced-scaffold na na JAGFVN010000139.1 <> na Primary Assembly 42807 na scaffold_89_ctg1 unplaced-scaffold na na JAGFVN010000140.1 <> na Primary Assembly 43034 na scaffold_90_ctg1 unplaced-scaffold na na JAGFVN010000142.1 <> na Primary Assembly 42047 na scaffold_91_ctg1 unplaced-scaffold na na JAGFVN010000143.1 <> na Primary Assembly 41602 na scaffold_92_ctg1 unplaced-scaffold na na JAGFVN010000144.1 <> na Primary Assembly 39803 na scaffold_93_ctg1 unplaced-scaffold na na JAGFVN010000145.1 <> na Primary Assembly 39544 na scaffold_94_ctg1 unplaced-scaffold na na JAGFVN010000146.1 <> na Primary Assembly 38999 na scaffold_95_ctg1 unplaced-scaffold na na JAGFVN010000147.1 <> na Primary Assembly 37452 na scaffold_96_ctg1 unplaced-scaffold na na JAGFVN010000148.1 <> na Primary Assembly 37302 na scaffold_97_ctg1 unplaced-scaffold na na JAGFVN010000149.1 <> na Primary Assembly 35977 na scaffold_98_ctg1 unplaced-scaffold na na JAGFVN010000150.1 <> na Primary Assembly 35825 na scaffold_99_ctg1 unplaced-scaffold na na JAGFVN010000151.1 <> na Primary Assembly 35448 na bCicMag1_MT assembled-molecule MT Mitochondrion CM030224.1 <> na non-nuclear 21477 na