# Assembly name: mPhoSin1.pri # Organism name: Phocoena sinus (vaquita) # Isolate: mPhoSin1 # Sex: female # Taxid: 42100 # BioSample: SAMN12325353 # BioProject: PRJNA557831 # Submitter: Vertebrate Genomes Project # Date: 2019-09-26 # Assembly type: haploid (principal pseudohaplotype of diploid) # Release type: major # Assembly level: Chromosome # Genome representation: full # WGS project: VOSU01 # Assembly method: FALCON v. 5.1.1; FALCON-Unzip v. 1.0.2; Arrow smrtanalysis Pacbio polishing v. 6.0.0.47841; purge_haplotigs v. 1.0.4; scaff10X v. 4.1; Bionano solve DLS v. 3.3_10252018; 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. 1.2.0; gEVAL manual curation v. 2019-07-23; VGP assembly pipeline individual v. 1.5 # Expected final version: no # Genome coverage: 67.26x # Sequencing technology: PacBio Sequel I; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLE-1 # RefSeq category: Representative Genome # GenBank assembly accession: GCA_008692025.1 # RefSeq assembly accession: GCF_008692025.1 # RefSeq assembly and GenBank assemblies identical: no # Linked assembly: GCA_008692045.1 (alternate pseudohaplotype of diploid) # ## Assembly-Units: ## GenBank Unit Accession RefSeq Unit Accession Assembly-Unit name ## GCA_008692125.1 GCF_008692125.1 Primary Assembly ## GCA_008692155.1 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 scaffold_1_arrow_ctg1 assembled-molecule 1 Chromosome CM018156.1 = NC_045763.1 Primary Assembly 185845356 na scaffold_2_arrow_ctg1 assembled-molecule 2 Chromosome CM018157.1 = NC_045764.1 Primary Assembly 178563925 na scaffold_3_arrow_ctg1 assembled-molecule 3 Chromosome CM018158.1 = NC_045765.1 Primary Assembly 174291665 na super_scaffold_1 assembled-molecule 4 Chromosome CM018159.1 = NC_045766.1 Primary Assembly 146127150 na super_scaffold_3 assembled-molecule 5 Chromosome CM018160.1 = NC_045767.1 Primary Assembly 139762554 na scaffold_5_arrow_ctg1 assembled-molecule 6 Chromosome CM018161.1 = NC_045768.1 Primary Assembly 115952311 na super_scaffold_2 assembled-molecule 7 Chromosome CM018162.1 = NC_045769.1 Primary Assembly 115469292 na scaffold_7_arrow_ctg1 assembled-molecule 8 Chromosome CM018163.1 = NC_045770.1 Primary Assembly 110408561 na scaffold_8_arrow_ctg1 assembled-molecule 9 Chromosome CM018164.1 = NC_045771.1 Primary Assembly 106736052 na scaffold_9_arrow_ctg1 assembled-molecule 10 Chromosome CM018165.1 = NC_045772.1 Primary Assembly 102828027 na super_scaffold_4 assembled-molecule 11 Chromosome CM018166.1 = NC_045773.1 Primary Assembly 104118372 na scaffold_12_arrow_ctg1 assembled-molecule 12 Chromosome CM018167.1 = NC_045774.1 Primary Assembly 90399378 na scaffold_11_arrow_ctg1 assembled-molecule 13 Chromosome CM018168.1 = NC_045775.1 Primary Assembly 90400161 na scaffold_13_arrow_ctg1 assembled-molecule 14 Chromosome CM018169.1 = NC_045776.1 Primary Assembly 89762611 na scaffold_15_arrow_ctg1 assembled-molecule 15 Chromosome CM018170.1 = NC_045777.1 Primary Assembly 88287594 na scaffold_16_arrow_ctg1 assembled-molecule 16 Chromosome CM018171.1 = NC_045778.1 Primary Assembly 85252673 na scaffold_18_arrow_ctg1 assembled-molecule 17 Chromosome CM018172.1 = NC_045779.1 Primary Assembly 79603858 na scaffold_17_arrow_ctg1 assembled-molecule 18 Chromosome CM018173.1 = NC_045780.1 Primary Assembly 79885847 na scaffold_19_arrow_ctg1 assembled-molecule 19 Chromosome CM018174.1 = NC_045781.1 Primary Assembly 59501331 na super_scaffold_5 assembled-molecule 20 Chromosome CM018175.1 = NC_045782.1 Primary Assembly 58878645 na scaffold_24_arrow_ctg1 assembled-molecule 21 Chromosome CM018176.1 = NC_045783.1 Primary Assembly 35802323 na scaffold_4_arrow_ctg1 assembled-molecule X Chromosome CM018177.1 = NC_045784.1 Primary Assembly 131664873 na scaffold_32_arrow_ctg1 unplaced-scaffold na na VOSU01000016.1 = NW_022605652.1 Primary Assembly 267968 na scaffold_33_arrow_ctg1 unplaced-scaffold na na VOSU01000017.1 = NW_022605653.1 Primary Assembly 254636 na scaffold_34_arrow_ctg1 unplaced-scaffold na na VOSU01000018.1 = NW_022605654.1 Primary Assembly 147779 na scaffold_35_arrow_ctg1 unplaced-scaffold na na VOSU01000019.1 = NW_022605655.1 Primary Assembly 103419 na scaffold_36_arrow_ctg1 unplaced-scaffold na na VOSU01000020.1 = NW_022605656.1 Primary Assembly 88414 na scaffold_37_arrow_ctg1 unplaced-scaffold na na VOSU01000021.1 = NW_022605657.1 Primary Assembly 80030 na scaffold_38_arrow_ctg1 unplaced-scaffold na na VOSU01000022.1 = NW_022605658.1 Primary Assembly 78647 na scaffold_39_arrow_ctg1 unplaced-scaffold na na VOSU01000023.1 = NW_022605659.1 Primary Assembly 69447 na scaffold_40_arrow_ctg1 unplaced-scaffold na na VOSU01000025.1 = NW_022605660.1 Primary Assembly 65243 na scaffold_41_arrow_ctg1 unplaced-scaffold na na VOSU01000026.1 = NW_022605661.1 Primary Assembly 59204 na scaffold_42_arrow_ctg1 unplaced-scaffold na na VOSU01000027.1 = NW_022605662.1 Primary Assembly 55716 na scaffold_43_arrow_ctg1 unplaced-scaffold na na VOSU01000028.1 = NW_022605663.1 Primary Assembly 49408 na scaffold_44_arrow_ctg1 unplaced-scaffold na na VOSU01000029.1 = NW_022605664.1 Primary Assembly 45317 na scaffold_45_arrow_ctg1 unplaced-scaffold na na VOSU01000030.1 = NW_022605665.1 Primary Assembly 44211 na scaffold_46_arrow_ctg1 unplaced-scaffold na na VOSU01000031.1 = NW_022605666.1 Primary Assembly 43034 na scaffold_47_arrow_ctg1 unplaced-scaffold na na VOSU01000032.1 = NW_022605667.1 Primary Assembly 40031 na scaffold_48_arrow_ctg1 unplaced-scaffold na na VOSU01000033.1 = NW_022605668.1 Primary Assembly 39634 na scaffold_49_arrow_ctg1 unplaced-scaffold na na VOSU01000034.1 = NW_022605669.1 Primary Assembly 32337 na scaffold_50_arrow_ctg1 unplaced-scaffold na na VOSU01000036.1 = NW_022605670.1 Primary Assembly 29911 na scaffold_51_arrow_ctg1 unplaced-scaffold na na VOSU01000037.1 = NW_022605671.1 Primary Assembly 29303 na scaffold_52_arrow_ctg1 unplaced-scaffold na na VOSU01000038.1 = NW_022605672.1 Primary Assembly 28742 na scaffold_53_arrow_ctg1 unplaced-scaffold na na VOSU01000039.1 = NW_022605673.1 Primary Assembly 28139 na scaffold_54_arrow_ctg1 unplaced-scaffold na na VOSU01000040.1 = NW_022605674.1 Primary Assembly 26721 na scaffold_55_arrow_ctg1 unplaced-scaffold na na VOSU01000041.1 = NW_022605675.1 Primary Assembly 26087 na scaffold_56_arrow_ctg1 unplaced-scaffold na na VOSU01000042.1 = NW_022605676.1 Primary Assembly 26094 na scaffold_57_arrow_ctg1 unplaced-scaffold na na VOSU01000043.1 = NW_022605677.1 Primary Assembly 25955 na scaffold_58_arrow_ctg1 unplaced-scaffold na na VOSU01000044.1 = NW_022605678.1 Primary Assembly 24616 na scaffold_59_arrow_ctg1 unplaced-scaffold na na VOSU01000045.1 = NW_022605679.1 Primary Assembly 23086 na scaffold_60_arrow_ctg1 unplaced-scaffold na na VOSU01000047.1 = NW_022605680.1 Primary Assembly 21261 na scaffold_61_arrow_ctg1 unplaced-scaffold na na VOSU01000048.1 = NW_022605681.1 Primary Assembly 20311 na scaffold_62_arrow_ctg1 unplaced-scaffold na na VOSU01000049.1 = NW_022605682.1 Primary Assembly 18243 na scaffold_63_arrow_ctg1 unplaced-scaffold na na VOSU01000050.1 = NW_022605683.1 Primary Assembly 18227 na scaffold_64_arrow_ctg1 unplaced-scaffold na na VOSU01000051.1 = NW_022605684.1 Primary Assembly 12384 na scaffold_65_arrow_ctg1 unplaced-scaffold na na VOSU01000052.1 = NW_022605685.1 Primary Assembly 11146 na scaffold_66_arrow_ctg1 unplaced-scaffold na na VOSU01000053.1 = NW_022605686.1 Primary Assembly 10452 na scaffold_67_arrow_ctg1 unplaced-scaffold na na VOSU01000054.1 = NW_022605687.1 Primary Assembly 10198 na scaffold_68_arrow_ctg1 unplaced-scaffold na na VOSU01000055.1 = NW_022605688.1 Primary Assembly 7875 na scaffold_69_arrow_ctg1 unplaced-scaffold na na VOSU01000056.1 = NW_022605689.1 Primary Assembly 5977 na scaffold_70_arrow_ctg1 unplaced-scaffold na na VOSU01000058.1 = NW_022605690.1 Primary Assembly 4420 na scaffold_71_arrow_ctg1 unplaced-scaffold na na VOSU01000059.1 = NW_022605691.1 Primary Assembly 3676 na scaffold_72_arrow_ctg1 unplaced-scaffold na na VOSU01000060.1 = NW_022605692.1 Primary Assembly 2425 na scaffold_73_arrow_ctg1 unplaced-scaffold na na VOSU01000061.1 = NW_022605693.1 Primary Assembly 1871 na mPhoSin1_MT assembled-molecule MT Mitochondrion CM018178.1 <> na non-nuclear 16370 na