# Assembly name: bCygOlo1.pri.v2 # Organism name: Cygnus olor (mute swan) # Isolate: bCygOlo1 # Sex: male # Taxid: 8869 # BioSample: SAMN12621369 # BioProject: PRJNA561960 # Submitter: Vertebrate Genomes Project # Date: 2021-03-31 # Assembly type: haploid (principal pseudohaplotype of diploid) # Release type: major # Assembly level: Chromosome # Genome representation: full # WGS project: WNMI02 # Assembly method: FALCON v. 2018.31.08-03.06; FALCON-Unzip v. 6.0.0.47841; purge_haplotigs v. 1.0.3+ 1.Nov.2018; scaff10x v. 4.1.0; Bionano solve v. 3.2.1_04122018; 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. 1.3.1; gEVAL manual curation v. 2020-11-30; VGP assembly pipeline individual v. 1.5 # Expected final version: no # Genome coverage: 60.23x # Sequencing technology: PacBio Sequel 1 CLR; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS # RefSeq category: Representative Genome # GenBank assembly accession: GCA_009769625.2 # RefSeq assembly accession: GCF_009769625.2 # RefSeq assembly and GenBank assemblies identical: no # Linked assembly: GCA_009769485.2 (alternate pseudohaplotype of diploid) # ## Assembly-Units: ## GenBank Unit Accession RefSeq Unit Accession Assembly-Unit name ## GCA_009769645.2 GCF_009769645.2 Primary Assembly ## GCA_009769655.2 GCF_013376615.1 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 CM020065.2 = NC_049169.1 Primary Assembly 209522193 na SUPER_2 assembled-molecule 2 Chromosome CM020066.2 = NC_049170.1 Primary Assembly 160819968 na SUPER_3 assembled-molecule 3 Chromosome CM020067.2 = NC_049171.1 Primary Assembly 121075659 na SUPER_4 assembled-molecule 4 Chromosome CM020068.2 = NC_049172.1 Primary Assembly 77817112 na SUPER_5 assembled-molecule 5 Chromosome CM020069.2 = NC_049173.1 Primary Assembly 66082187 na SUPER_6 assembled-molecule 6 Chromosome CM020070.2 = NC_049174.1 Primary Assembly 40612327 na SUPER_7 assembled-molecule 7 Chromosome CM020071.2 = NC_049175.1 Primary Assembly 38448754 na SUPER_8 assembled-molecule 8 Chromosome CM020072.2 = NC_049176.1 Primary Assembly 33077122 na SUPER_9 assembled-molecule 9 Chromosome CM020073.2 = NC_049177.1 Primary Assembly 26864309 na SUPER_10 assembled-molecule 10 Chromosome CM020074.2 = NC_049178.1 Primary Assembly 22537910 na SUPER_11 assembled-molecule 11 Chromosome CM020075.2 = NC_049179.1 Primary Assembly 22221292 na SUPER_12 assembled-molecule 12 Chromosome CM020076.2 = NC_049180.1 Primary Assembly 21829091 na SUPER_13 assembled-molecule 13 Chromosome CM020077.2 = NC_049181.1 Primary Assembly 21471338 na SUPER_14 assembled-molecule 14 Chromosome CM020078.2 = NC_049182.1 Primary Assembly 20171002 na SUPER_15 assembled-molecule 15 Chromosome CM020079.2 = NC_049183.1 Primary Assembly 18038157 na SUPER_16 assembled-molecule 16 Chromosome CM020080.2 = NC_049184.1 Primary Assembly 16306521 na SUPER_17 assembled-molecule 17 Chromosome CM020081.2 = NC_049185.1 Primary Assembly 15555256 na SUPER_18 assembled-molecule 18 Chromosome CM020082.2 = NC_049186.1 Primary Assembly 13183618 na SUPER_19 assembled-molecule 19 Chromosome CM020083.2 = NC_049187.1 Primary Assembly 12197728 na SUPER_20 assembled-molecule 20 Chromosome CM020084.2 = NC_049188.1 Primary Assembly 12179482 na SUPER_21 assembled-molecule 21 Chromosome CM020085.2 = NC_049189.1 Primary Assembly 9108455 na SUPER_22 assembled-molecule 22 Chromosome CM020086.2 = NC_049190.1 Primary Assembly 7827900 na SUPER_23 assembled-molecule 23 Chromosome CM020087.2 = NC_049191.1 Primary Assembly 7742836 na SUPER_24 assembled-molecule 24 Chromosome CM020088.2 = NC_049192.1 Primary Assembly 7030567 na SUPER_25 assembled-molecule 25 Chromosome CM020089.2 = NC_049193.1 Primary Assembly 6703957 na SUPER_26 assembled-molecule 26 Chromosome CM020090.2 = NC_049194.1 Primary Assembly 5979541 na SUPER_27 assembled-molecule 27 Chromosome CM020091.2 = NC_049195.1 Primary Assembly 5774743 na SUPER_28 assembled-molecule 28 Chromosome CM020092.2 = NC_049196.1 Primary Assembly 3113520 na SUPER_29 assembled-molecule 29 Chromosome CM020093.2 = NC_049197.1 Primary Assembly 2612546 na SUPER_30 assembled-molecule 30 Chromosome CM030310.1 = NC_054087.1 Primary Assembly 834663 na SUPER_31 assembled-molecule 31 Chromosome CM030311.1 = NC_054088.1 Primary Assembly 609777 na SUPER_32 assembled-molecule 32 Chromosome CM030312.1 = NC_054089.1 Primary Assembly 744893 na SUPER_33 assembled-molecule 33 Chromosome CM030313.1 = NC_054090.1 Primary Assembly 727361 na SUPER_34 assembled-molecule 34 Chromosome CM030314.1 = NC_054091.1 Primary Assembly 739387 na SUPER_Z assembled-molecule Z Chromosome CM020094.2 = NC_049198.1 Primary Assembly 81481363 na SUPER_W assembled-molecule W Chromosome CM020095.2 = NC_049199.1 Primary Assembly 4360453 na SUPER_1a unlocalized-scaffold 1 Chromosome WNMI02000001.1 = NW_024429046.1 Primary Assembly 17129 na SUPER_2A unlocalized-scaffold 2 Chromosome WNMI02000006.1 = NW_024429047.1 Primary Assembly 34599 na SUPER_25A unlocalized-scaffold 25 Chromosome WNMI02000058.1 = NW_024429048.1 Primary Assembly 39583 na SUPER_30A unlocalized-scaffold 30 Chromosome WNMI02000064.1 = NW_024429049.1 Primary Assembly 204574 na SUPER_30B unlocalized-scaffold 30 Chromosome WNMI02000065.1 = NW_024429050.1 Primary Assembly 120266 na SUPER_30C unlocalized-scaffold 30 Chromosome WNMI02000066.1 = NW_024429051.1 Primary Assembly 94210 na SUPER_31A unlocalized-scaffold 31 Chromosome WNMI02000068.1 = NW_024429052.1 Primary Assembly 250547 na SUPER_33A unlocalized-scaffold 33 Chromosome WNMI02000070.1 = NW_024429053.1 Primary Assembly 92527 na SUPER_34A unlocalized-scaffold 34 Chromosome WNMI02000073.1 = NW_024429054.1 Primary Assembly 396123 na SUPER_ZA unlocalized-scaffold Z Chromosome WNMI02000024.1 = NW_024429055.1 Primary Assembly 34732 na SUPER_ZB unlocalized-scaffold Z Chromosome WNMI02000025.1 = NW_024429056.1 Primary Assembly 18330 na SUPER_ZF unlocalized-scaffold Z Chromosome WNMI02000026.1 = NW_024429057.1 Primary Assembly 47782 na SUPER_ZG unlocalized-scaffold Z Chromosome WNMI02000027.1 = NW_024429058.1 Primary Assembly 21422 na SUPER_ZH unlocalized-scaffold Z Chromosome WNMI02000028.1 = NW_024429059.1 Primary Assembly 220942 na SUPER_ZI unlocalized-scaffold Z Chromosome WNMI02000029.1 = NW_024429060.1 Primary Assembly 207784 na SUPER_ZJ unlocalized-scaffold Z Chromosome WNMI02000030.1 = NW_024429061.1 Primary Assembly 115048 na SUPER_ZK unlocalized-scaffold Z Chromosome WNMI02000031.1 = NW_024429062.1 Primary Assembly 109475 na SUPER_ZL unlocalized-scaffold Z Chromosome WNMI02000032.1 = NW_024429063.1 Primary Assembly 91033 na SUPER_ZM unlocalized-scaffold Z Chromosome WNMI02000033.1 = NW_024429064.1 Primary Assembly 87182 na SUPER_ZN unlocalized-scaffold Z Chromosome WNMI02000034.1 = NW_024429065.1 Primary Assembly 83679 na SUPER_ZO unlocalized-scaffold Z Chromosome WNMI02000035.1 = NW_024429066.1 Primary Assembly 51553 na SUPER_ZP unlocalized-scaffold Z Chromosome WNMI02000036.1 = NW_024429067.1 Primary Assembly 48681 na SUPER_ZQ unlocalized-scaffold Z Chromosome WNMI02000037.1 = NW_024429068.1 Primary Assembly 70702 na scaffold_123_ctg1 unlocalized-scaffold Z Chromosome WNMI02000092.1 = NW_024429069.1 Primary Assembly 78808 na SUPER_W6 unlocalized-scaffold W Chromosome WNMI02000038.1 = NW_024429077.1 Primary Assembly 1193436 na SUPER_W7 unlocalized-scaffold W Chromosome WNMI02000039.1 = NW_024429078.1 Primary Assembly 2652535 na SUPER_W1 unlocalized-scaffold W Chromosome WNMI02000041.1 = NW_024429070.1 Primary Assembly 1872054 na SUPER_W2 unlocalized-scaffold W Chromosome WNMI02000042.1 = NW_024429073.1 Primary Assembly 1734849 na SUPER_W3 unlocalized-scaffold W Chromosome WNMI02000043.1 = NW_024429074.1 Primary Assembly 1680241 na SUPER_W4 unlocalized-scaffold W Chromosome WNMI02000044.1 = NW_024429075.1 Primary Assembly 1324276 na SUPER_W5 unlocalized-scaffold W Chromosome WNMI02000045.1 = NW_024429076.1 Primary Assembly 1315438 na SUPER_W8 unlocalized-scaffold W Chromosome WNMI02000046.1 = NW_024429079.1 Primary Assembly 559808 na SUPER_W9 unlocalized-scaffold W Chromosome WNMI02000047.1 = NW_024429080.1 Primary Assembly 41606 na SUPER_W10 unlocalized-scaffold W Chromosome WNMI02000048.1 = NW_024429071.1 Primary Assembly 34153 na SUPER_W11 unlocalized-scaffold W Chromosome WNMI02000049.1 = NW_024429072.1 Primary Assembly 9004 na scaffold_110_ctg1 unlocalized-scaffold W Chromosome WNMI02000050.1 = NW_024429081.1 Primary Assembly 92949 na S56 unplaced-scaffold na na WNMI02000051.1 = NW_024429086.1 Primary Assembly 79453 na S70 unplaced-scaffold na na WNMI02000059.1 = NW_024429087.1 Primary Assembly 5805 na S91 unplaced-scaffold na na WNMI02000074.1 = NW_024429088.1 Primary Assembly 49753 na S92 unplaced-scaffold na na WNMI02000075.1 = NW_024429089.1 Primary Assembly 33991 na S93 unplaced-scaffold na na WNMI02000076.1 = NW_024429090.1 Primary Assembly 97321 na S94 unplaced-scaffold na na WNMI02000077.1 = NW_024429091.1 Primary Assembly 67884 na S95 unplaced-scaffold na na WNMI02000078.1 = NW_024429092.1 Primary Assembly 94450 na S96 unplaced-scaffold na na WNMI02000079.1 = NW_024429093.1 Primary Assembly 22773 na S98 unplaced-scaffold na na WNMI02000080.1 = NW_024429094.1 Primary Assembly 31155 na S99 unplaced-scaffold na na WNMI02000081.1 = NW_024429095.1 Primary Assembly 81059 na S100 unplaced-scaffold na na WNMI02000082.1 = NW_024429082.1 Primary Assembly 177645 na S101 unplaced-scaffold na na WNMI02000083.1 = NW_024429083.1 Primary Assembly 266767 na S102 unplaced-scaffold na na WNMI02000084.1 = NW_024429084.1 Primary Assembly 171470 na S104 unplaced-scaffold na na WNMI02000085.1 = NW_024429085.1 Primary Assembly 16295 na scaffold_78_ctg1 unplaced-scaffold na na WNMI02000086.1 = NW_024429178.1 Primary Assembly 286295 na scaffold_95_ctg1 unplaced-scaffold na na WNMI02000087.1 = NW_024429179.1 Primary Assembly 166209 na scaffold_103_ctg1 unplaced-scaffold na na WNMI02000088.1 = NW_024429096.1 Primary Assembly 104314 na scaffold_107_ctg1 unplaced-scaffold na na WNMI02000089.1 = NW_024429097.1 Primary Assembly 96573 na scaffold_111_ctg1 unplaced-scaffold na na WNMI02000090.1 = NW_024429098.1 Primary Assembly 92463 na scaffold_120_ctg1 unplaced-scaffold na na WNMI02000091.1 = NW_024429099.1 Primary Assembly 82469 na scaffold_129_ctg1 unplaced-scaffold na na WNMI02000093.1 = NW_024429100.1 Primary Assembly 64845 na scaffold_131_ctg1 unplaced-scaffold na na WNMI02000094.1 = NW_024429101.1 Primary Assembly 63521 na scaffold_135_ctg1 unplaced-scaffold na na WNMI02000095.1 = NW_024429102.1 Primary Assembly 58252 na scaffold_136_ctg1 unplaced-scaffold na na WNMI02000096.1 = NW_024429103.1 Primary Assembly 57344 na scaffold_138_ctg1 unplaced-scaffold na na WNMI02000097.1 = NW_024429104.1 Primary Assembly 56193 na scaffold_141_ctg1 unplaced-scaffold na na WNMI02000098.1 = NW_024429105.1 Primary Assembly 51651 na scaffold_149_ctg1 unplaced-scaffold na na WNMI02000099.1 = NW_024429106.1 Primary Assembly 43829 na scaffold_150_ctg1 unplaced-scaffold na na WNMI02000100.1 = NW_024429107.1 Primary Assembly 43701 na scaffold_153_ctg1 unplaced-scaffold na na WNMI02000101.1 = NW_024429108.1 Primary Assembly 41943 na scaffold_155_ctg1 unplaced-scaffold na na WNMI02000102.1 = NW_024429109.1 Primary Assembly 40222 na scaffold_156_ctg1 unplaced-scaffold na na WNMI02000103.1 = NW_024429110.1 Primary Assembly 39907 na scaffold_158_ctg1 unplaced-scaffold na na WNMI02000104.1 = NW_024429111.1 Primary Assembly 39088 na scaffold_162_ctg1 unplaced-scaffold na na WNMI02000105.1 = NW_024429112.1 Primary Assembly 37054 na scaffold_170_ctg1 unplaced-scaffold na na WNMI02000106.1 = NW_024429113.1 Primary Assembly 31076 na scaffold_172_ctg1 unplaced-scaffold na na WNMI02000107.1 = NW_024429114.1 Primary Assembly 30000 na scaffold_173_ctg1 unplaced-scaffold na na WNMI02000108.1 = NW_024429115.1 Primary Assembly 29949 na scaffold_174_ctg1 unplaced-scaffold na na WNMI02000109.1 = NW_024429116.1 Primary Assembly 29703 na scaffold_175_ctg1 unplaced-scaffold na na WNMI02000110.1 = NW_024429117.1 Primary Assembly 29512 na scaffold_176_ctg1 unplaced-scaffold na na WNMI02000111.1 = NW_024429118.1 Primary Assembly 29291 na scaffold_177_ctg1 unplaced-scaffold na na WNMI02000112.1 = NW_024429119.1 Primary Assembly 28936 na scaffold_178_ctg1 unplaced-scaffold na na WNMI02000113.1 = NW_024429120.1 Primary Assembly 28310 na scaffold_180_ctg1 unplaced-scaffold na na WNMI02000114.1 = NW_024429121.1 Primary Assembly 26837 na scaffold_181_ctg1 unplaced-scaffold na na WNMI02000115.1 = NW_024429122.1 Primary Assembly 26264 na scaffold_182_ctg1 unplaced-scaffold na na WNMI02000116.1 = NW_024429123.1 Primary Assembly 26179 na scaffold_183_ctg1 unplaced-scaffold na na WNMI02000117.1 = NW_024429124.1 Primary Assembly 25963 na scaffold_186_ctg1 unplaced-scaffold na na WNMI02000118.1 = NW_024429125.1 Primary Assembly 24833 na scaffold_188_ctg1 unplaced-scaffold na na WNMI02000119.1 = NW_024429126.1 Primary Assembly 24614 na scaffold_189_ctg1 unplaced-scaffold na na WNMI02000120.1 = NW_024429127.1 Primary Assembly 24600 na scaffold_190_ctg1 unplaced-scaffold na na WNMI02000121.1 = NW_024429128.1 Primary Assembly 24531 na scaffold_191_ctg1 unplaced-scaffold na na WNMI02000122.1 = NW_024429129.1 Primary Assembly 24095 na scaffold_192_ctg1 unplaced-scaffold na na WNMI02000123.1 = NW_024429130.1 Primary Assembly 24014 na scaffold_193_ctg1 unplaced-scaffold na na WNMI02000124.1 = NW_024429131.1 Primary Assembly 23024 na scaffold_194_ctg1 unplaced-scaffold na na WNMI02000125.1 = NW_024429132.1 Primary Assembly 22998 na scaffold_197_ctg1 unplaced-scaffold na na WNMI02000126.1 = NW_024429133.1 Primary Assembly 21069 na scaffold_198_ctg1 unplaced-scaffold na na WNMI02000127.1 = NW_024429134.1 Primary Assembly 20997 na scaffold_200_ctg1 unplaced-scaffold na na WNMI02000128.1 = NW_024429135.1 Primary Assembly 19815 na scaffold_201_ctg1 unplaced-scaffold na na WNMI02000129.1 = NW_024429136.1 Primary Assembly 19777 na scaffold_203_ctg1 unplaced-scaffold na na WNMI02000130.1 = NW_024429137.1 Primary Assembly 18722 na scaffold_205_ctg1 unplaced-scaffold na na WNMI02000131.1 = NW_024429138.1 Primary Assembly 17764 na scaffold_207_ctg1 unplaced-scaffold na na WNMI02000132.1 = NW_024429139.1 Primary Assembly 17375 na scaffold_208_ctg1 unplaced-scaffold na na WNMI02000133.1 = NW_024429140.1 Primary Assembly 17262 na scaffold_211_ctg1 unplaced-scaffold na na WNMI02000134.1 = NW_024429141.1 Primary Assembly 16772 na scaffold_213_ctg1 unplaced-scaffold na na WNMI02000135.1 = NW_024429142.1 Primary Assembly 16055 na scaffold_214_ctg1 unplaced-scaffold na na WNMI02000136.1 = NW_024429143.1 Primary Assembly 15900 na scaffold_215_ctg1 unplaced-scaffold na na WNMI02000137.1 = NW_024429144.1 Primary Assembly 15825 na scaffold_216_ctg1 unplaced-scaffold na na WNMI02000138.1 = NW_024429145.1 Primary Assembly 15748 na scaffold_217_ctg1 unplaced-scaffold na na WNMI02000139.1 = NW_024429146.1 Primary Assembly 14999 na scaffold_218_ctg1 unplaced-scaffold na na WNMI02000140.1 = NW_024429147.1 Primary Assembly 14563 na scaffold_219_ctg1 unplaced-scaffold na na WNMI02000141.1 = NW_024429148.1 Primary Assembly 13916 na scaffold_220_ctg1 unplaced-scaffold na na WNMI02000142.1 = NW_024429149.1 Primary Assembly 13633 na scaffold_221_ctg1 unplaced-scaffold na na WNMI02000143.1 = NW_024429150.1 Primary Assembly 13468 na scaffold_223_ctg1 unplaced-scaffold na na WNMI02000144.1 = NW_024429151.1 Primary Assembly 13009 na scaffold_224_ctg1 unplaced-scaffold na na WNMI02000145.1 = NW_024429152.1 Primary Assembly 12139 na scaffold_225_ctg1 unplaced-scaffold na na WNMI02000146.1 = NW_024429153.1 Primary Assembly 12164 na scaffold_226_ctg1 unplaced-scaffold na na WNMI02000147.1 = NW_024429154.1 Primary Assembly 11798 na scaffold_227_ctg1 unplaced-scaffold na na WNMI02000148.1 = NW_024429155.1 Primary Assembly 11613 na scaffold_228_ctg1 unplaced-scaffold na na WNMI02000149.1 = NW_024429156.1 Primary Assembly 11480 na scaffold_229_ctg1 unplaced-scaffold na na WNMI02000150.1 = NW_024429157.1 Primary Assembly 11143 na scaffold_230_ctg1 unplaced-scaffold na na WNMI02000151.1 = NW_024429158.1 Primary Assembly 10493 na scaffold_231_ctg1 unplaced-scaffold na na WNMI02000152.1 = NW_024429159.1 Primary Assembly 9995 na scaffold_232_ctg1 unplaced-scaffold na na WNMI02000153.1 = NW_024429160.1 Primary Assembly 9900 na scaffold_234_ctg1 unplaced-scaffold na na WNMI02000154.1 = NW_024429161.1 Primary Assembly 8978 na scaffold_236_ctg1 unplaced-scaffold na na WNMI02000155.1 = NW_024429162.1 Primary Assembly 8530 na scaffold_237_ctg1 unplaced-scaffold na na WNMI02000156.1 = NW_024429163.1 Primary Assembly 8430 na scaffold_239_ctg1 unplaced-scaffold na na WNMI02000157.1 = NW_024429164.1 Primary Assembly 7974 na scaffold_240_ctg1 unplaced-scaffold na na WNMI02000158.1 = NW_024429165.1 Primary Assembly 7878 na scaffold_241_ctg1 unplaced-scaffold na na WNMI02000159.1 = NW_024429166.1 Primary Assembly 7859 na scaffold_242_ctg1 unplaced-scaffold na na WNMI02000160.1 = NW_024429167.1 Primary Assembly 7856 na scaffold_243_ctg1 unplaced-scaffold na na WNMI02000161.1 = NW_024429168.1 Primary Assembly 7645 na scaffold_244_ctg1 unplaced-scaffold na na WNMI02000162.1 = NW_024429169.1 Primary Assembly 6568 na scaffold_245_ctg1 unplaced-scaffold na na WNMI02000163.1 = NW_024429170.1 Primary Assembly 6344 na scaffold_246_ctg1 unplaced-scaffold na na WNMI02000164.1 = NW_024429171.1 Primary Assembly 6162 na scaffold_247_ctg1 unplaced-scaffold na na WNMI02000165.1 = NW_024429172.1 Primary Assembly 5865 na scaffold_249_ctg1 unplaced-scaffold na na WNMI02000166.1 = NW_024429173.1 Primary Assembly 5761 na scaffold_250_ctg1 unplaced-scaffold na na WNMI02000167.1 = NW_024429174.1 Primary Assembly 4950 na scaffold_251_ctg1 unplaced-scaffold na na WNMI02000168.1 = NW_024429175.1 Primary Assembly 2314 na scaffold_252_ctg1 unplaced-scaffold na na WNMI02000169.1 = NW_024429176.1 Primary Assembly 2213 na scaffold_253_ctg1 unplaced-scaffold na na WNMI02000170.1 = NW_024429177.1 Primary Assembly 711 na MT assembled-molecule MT Mitochondrion na <> NC_027096.1 non-nuclear 16739 na bCygOlo1_MT assembled-molecule MT Mitochondrion CM020139.1 <> na non-nuclear 16733 na