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kPetMar1.pri

Organism name:
Petromyzon marinus (sea lamprey)
Isolate:
kPetMar1
Sex:
male
BioSample:
SAMN12629506
BioProject:
PRJNA562011
Submitter:
Vertebrate Genomes Project
Date:
2020/02/24
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_010993605.1 (latest)
RefSeq assembly accession:
GCF_010993605.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
JAAIYE01
Assembly method:
FALCON v. DNANexus 1.9.0; FALCON-Unzip v. DNANexus 1.0.6; purge_dups v. github ca23030ccf4254dfd2d3a5ea90d0eed41c24f88b; scaff10x v. 4.1.0; Bionano Solve DLS v. 3.2.1; Salsa HiC v. 2.2; Arrow smrtanalysis Pacbio polishing & gap filling v. smrtlink_6.0.0.47841; longranger align v. 2.2.2; freebayes Illumina polishing v. 1.3.1; gEVAL manual curation v. 2019-12-09; VGP assembly pipeline individual v. 1.6
Expected final version:
no
Genome coverage:
62.36x
Sequencing technology:
PacBio Sequel I CLR; llumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS
Linked assembly:
GCA_010993595.1 (alternate pseudohaplotype of diploid)

IDs: 6060451 [UID] 17247338 [GenBank] 17421198 [RefSeq]

See Genome Information for Petromyzon marinus

Pathogen Detection Resources

There are 4 assemblies for this organism

See more

History (Show revision history)

Comment

This assembly represents the principal haplotype of the diploid genome Petromyzon marinus and includes the chromosomes. The alternate haplotype sequences are in WGS project JAAIYF000000000

Global statistics

Total sequence length1,089,050,413
Total ungapped length1,074,036,726
Gaps between scaffolds0
Number of scaffolds1,434
Scaffold N5012,997,950
Scaffold L5033
Number of contigs2,364
Contig N502,540,784
Contig L50102
Total number of chromosomes and plasmids86
Number of component sequences (WGS or clone)1,434

Supplemental Content

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Assembly Information

Related Information

PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
non-nuclear
Assembly Unit: Primary Assembly (GCF_010993725.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM021441.1=NC_046069.10
Chromosome 2CM021442.1=NC_046070.10
Chromosome 3CM021443.1=NC_046071.10
Chromosome 4CM021444.1=NC_046072.10
Chromosome 5CM021445.1=NC_046073.10
Chromosome 6CM021446.1=NC_046074.10
Chromosome 7CM021447.1=NC_046075.10
Chromosome 8CM021448.1=NC_046076.10
Chromosome 9CM021449.1=NC_046077.10
Chromosome 10CM021450.1=NC_046078.10
Chromosome 11CM021451.1=NC_046079.10
Chromosome 12CM021452.1=NC_046080.10
Chromosome 13CM021453.1=NC_046081.10
Chromosome 14CM021454.1=NC_046082.10
Chromosome 15CM021455.1=NC_046083.10
Chromosome 16CM021456.1=NC_046084.10
Chromosome 17CM021457.1=NC_046085.10
Chromosome 18CM021458.1=NC_046086.10
Chromosome 19CM021459.1=NC_046087.10
Chromosome 20CM021460.1=NC_046088.10
Chromosome 21CM021461.1=NC_046089.10
Chromosome 22CM021462.1=NC_046090.10
Chromosome 23CM021463.1=NC_046091.10
Chromosome 24CM021464.1=NC_046092.10
Chromosome 25CM021465.1=NC_046093.10
Chromosome 26CM021466.1=NC_046094.10
Chromosome 27CM021467.1=NC_046095.10
Chromosome 28CM021468.1=NC_046096.10
Chromosome 29CM021469.1=NC_046097.10
Chromosome 30CM021470.1=NC_046098.10
Chromosome 31CM021471.1=NC_046099.10
Chromosome 32CM021472.1=NC_046100.10
Chromosome 33CM021473.1=NC_046101.10
Chromosome 34CM021474.1=NC_046102.10
Chromosome 35CM021475.1=NC_046103.12
Chromosome 36CM021476.1=NC_046104.10
Chromosome 37CM021477.1=NC_046105.10
Chromosome 38CM021478.1=NC_046106.12
Chromosome 39CM021479.1=NC_046107.10
Chromosome 40CM021480.1=NC_046108.10
Chromosome 41CM021481.1=NC_046109.10
Chromosome 42CM021482.1=NC_046110.11
Chromosome 43CM021483.1=NC_046111.12
Chromosome 44CM021484.1=NC_046112.10
Chromosome 45CM021485.1=NC_046113.10
Chromosome 46CM021486.1=NC_046114.10
Chromosome 47CM021487.1=NC_046115.10
Chromosome 48CM021488.1=NC_046116.11
Chromosome 49CM021489.1=NC_046117.10
Chromosome 50CM021490.1=NC_046118.10
Chromosome 51CM021491.1=NC_046119.10
Chromosome 52CM021492.1=NC_046120.10
Chromosome 53CM021493.1=NC_046121.10
Chromosome 54CM021494.1=NC_046122.10
Chromosome 55CM021495.1=NC_046123.10
Chromosome 56CM021496.1=NC_046124.10
Chromosome 57CM021497.1=NC_046125.10
Chromosome 58CM021498.1=NC_046126.10
Chromosome 59CM021499.1=NC_046127.10
Chromosome 60CM021500.1=NC_046128.11
Chromosome 61CM021501.1=NC_046129.14
Chromosome 62CM021502.1=NC_046130.12
Chromosome 63CM021503.1=NC_046131.12
Chromosome 64CM021504.1=NC_046132.17
Chromosome 65CM021505.1=NC_046133.11
Chromosome 66CM021506.1=NC_046134.16
Chromosome 67CM021507.1=NC_046135.12
Chromosome 68CM021508.1=NC_046136.15
Chromosome 69CM021509.1=NC_046137.10
Chromosome 70CM021510.1=NC_046138.16
Chromosome 71CM021511.1=NC_046139.12
Chromosome 72CM021512.1=NC_046140.16
Chromosome 73CM021513.1=NC_046141.14
Chromosome 74CM021514.1=NC_046142.18
Chromosome 75CM021515.1=NC_046143.18
Chromosome 76CM021516.1=NC_046144.18
Chromosome 77CM021517.1=NC_046145.114
Chromosome 78CM021518.1=NC_046146.15
Chromosome 79CM021519.1=NC_046147.16
Chromosome 80CM021520.1=NC_046148.113
Chromosome 81CM021521.1=NC_046149.12
Chromosome 82CM021522.1=NC_046150.16
Chromosome 83CM021523.1=NC_046151.110
Chromosome 84CM021524.1=NC_046152.113
Chromosome 85CM021525.1=NC_046153.14
unplacedn/an/an/a1,195

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule1,089,034,2121,4331,074,020,52512,997,9509300
Chromosome 1Assembled molecule34,253,345133,366,29334,253,345330
Chromosome 2Assembled molecule26,287,998126,071,30926,287,998130
Chromosome 3Assembled molecule25,627,751125,260,85325,627,751100
Chromosome 4Assembled molecule25,147,651123,862,05625,147,65150
Chromosome 5Assembled molecule19,408,777119,153,69119,408,777160
Chromosome 6Assembled molecule19,176,400119,063,74919,176,40010
Chromosome 7Assembled molecule16,782,645116,576,49616,782,64540
Chromosome 8Assembled molecule16,598,580116,373,55616,598,58090
Chromosome 9Assembled molecule16,569,030116,563,10916,569,03020
Chromosome 10Assembled molecule16,488,529116,265,14816,488,52950
Chromosome 11Assembled molecule16,036,253115,836,87716,036,25350
Chromosome 12Assembled molecule15,977,020115,639,04315,977,02080
Chromosome 13Assembled molecule15,679,795115,601,11115,679,79590
Chromosome 14Assembled molecule15,641,203115,532,87915,641,20370
Chromosome 15Assembled molecule15,570,286115,528,91515,570,28660
Chromosome 16Assembled molecule15,296,199115,281,54515,296,19940
Chromosome 17Assembled molecule14,784,765114,553,62814,784,76520
Chromosome 18Assembled molecule14,497,445114,496,94514,497,44510
Chromosome 19Assembled molecule14,285,571113,746,04814,285,57180
Chromosome 20Assembled molecule14,264,734114,236,05014,264,73440
Chromosome 21Assembled molecule14,191,315114,166,17214,191,315150
Chromosome 22Assembled molecule14,124,742114,041,07614,124,74240
Chromosome 23Assembled molecule14,098,332112,572,23514,098,33250
Chromosome 24Assembled molecule14,075,897113,840,35614,075,89760
Chromosome 25Assembled molecule13,704,003113,477,59113,704,003100
Chromosome 26Assembled molecule13,661,365113,563,79713,661,36550
Chromosome 27Assembled molecule13,631,014113,387,16413,631,01450
Chromosome 28Assembled molecule13,533,735113,128,50013,533,73580
Chromosome 29Assembled molecule13,445,430113,444,03013,445,43030
Chromosome 30Assembled molecule13,413,252113,290,67213,413,25230
Chromosome 31Assembled molecule13,170,389113,102,68013,170,389100
Chromosome 32Assembled molecule13,147,369112,696,89813,147,36960
Chromosome 33Assembled molecule12,997,950112,927,58412,997,95040
Chromosome 34Assembled molecule12,676,610112,564,57412,676,61050
Chromosome 35AllAssembled moleculeUnlocalized scaffolds12,943,19212,651,760291,43231212,892,10012,600,668291,43212,651,76012,651,760172,072990000
Chromosome 36Assembled molecule12,603,859112,586,37912,603,85980
Chromosome 37Assembled molecule12,512,070112,412,12712,512,07040
Chromosome 38AllAssembled moleculeUnlocalized scaffolds13,314,80812,490,248824,56031212,974,69212,151,629823,06312,490,24812,490,248544,549963000
Chromosome 39Assembled molecule12,408,743112,351,86212,408,74370
Chromosome 40Assembled molecule12,385,428112,222,26112,385,42840
Chromosome 41Assembled molecule11,774,327111,640,70511,774,32750
Chromosome 42AllAssembled moleculeUnlocalized scaffolds11,941,42611,717,739223,68721111,705,56911,481,882223,68711,717,73911,717,739223,68715150000
Chromosome 43AllAssembled moleculeUnlocalized scaffolds13,393,26211,523,5531,869,70931213,176,82911,307,1201,869,70911,523,55311,523,5531,746,94611110000
Chromosome 44Assembled molecule11,442,860111,403,75711,442,86050
Chromosome 45Assembled molecule11,256,141111,134,87311,256,14160
Chromosome 46Assembled molecule11,243,752111,102,65211,243,75250
Chromosome 47Assembled molecule11,181,220110,889,63411,181,22050
Chromosome 48AllAssembled moleculeUnlocalized scaffolds11,305,44711,040,504264,94321111,075,85310,810,910264,94311,040,50411,040,504264,943880000
Chromosome 49Assembled molecule11,039,831110,794,28811,039,83170
Chromosome 50Assembled molecule10,986,523110,790,44510,986,52370
Chromosome 51Assembled molecule10,963,866110,962,26610,963,86670
Chromosome 52Assembled molecule10,619,153110,505,93210,619,15380
Chromosome 53Assembled molecule10,595,002110,459,15810,595,002140
Chromosome 54Assembled molecule10,136,571110,013,12110,136,571100
Chromosome 55Assembled molecule9,937,95019,850,2269,937,95060
Chromosome 56Assembled molecule9,491,72019,303,9369,491,720170
Chromosome 57Assembled molecule9,423,79119,397,2879,423,791120
Chromosome 58Assembled molecule9,379,32019,168,1129,379,320130
Chromosome 59Assembled molecule9,362,69019,285,7629,362,690140
Chromosome 60AllAssembled moleculeUnlocalized scaffolds8,991,8438,845,012146,8312118,944,0978,797,366146,7318,845,0128,845,012146,831981000
Chromosome 61AllAssembled moleculeUnlocalized scaffolds9,078,8348,459,252619,5825148,832,5108,213,428619,0828,459,2528,459,252158,26418171000
Chromosome 62AllAssembled moleculeUnlocalized scaffolds8,764,7318,305,536459,1953128,714,1068,254,911459,1958,305,5368,305,536291,20320200000
Chromosome 63AllAssembled moleculeUnlocalized scaffolds8,673,1048,267,969405,1353128,487,0438,081,908405,1358,267,9698,267,969206,84312120000
Chromosome 64AllAssembled moleculeUnlocalized scaffolds9,878,1557,879,9111,998,2448179,699,9997,701,7551,998,2447,879,9117,879,911301,116770000
Chromosome 65AllAssembled moleculeUnlocalized scaffolds7,911,2047,680,877230,3272117,908,0137,677,686230,3277,680,8777,680,877230,32710100000
Chromosome 66AllAssembled moleculeUnlocalized scaffolds8,228,5246,567,9091,660,6157168,225,8246,565,3091,660,5156,567,9096,567,909282,3791091000
Chromosome 67AllAssembled moleculeUnlocalized scaffolds6,680,4566,201,329479,1273126,673,9566,194,929479,0276,201,3296,201,329269,41922211000
Chromosome 68AllAssembled moleculeUnlocalized scaffolds11,536,5925,876,5415,660,05161511,154,9935,873,9815,281,0125,876,5415,876,5413,856,117201010000
Chromosome 69Assembled molecule5,322,47015,315,1705,322,470200
Chromosome 70AllAssembled moleculeUnlocalized scaffolds7,140,8595,097,3332,043,5267167,135,3595,093,3332,042,0265,097,3335,097,333351,20814113000
Chromosome 71AllAssembled moleculeUnlocalized scaffolds5,095,2224,146,260948,9623124,797,4883,849,222948,2664,146,2604,146,260507,8701183000
Chromosome 72AllAssembled moleculeUnlocalized scaffolds6,784,4394,109,8672,674,5727166,700,9254,028,6312,672,2944,109,8674,109,867465,1011596000
Chromosome 73AllAssembled moleculeUnlocalized scaffolds5,333,1962,781,4282,551,7685145,142,7062,780,7282,361,9782,781,4282,781,428693,641642000
Chromosome 74AllAssembled moleculeUnlocalized scaffolds6,819,4462,644,4914,174,9559186,817,2462,643,9914,173,2551,213,5002,644,491580,596835000
Chromosome 75AllAssembled moleculeUnlocalized scaffolds4,848,1472,426,6422,421,5059184,811,6162,390,4112,421,2052,426,6422,426,642278,673523000
Chromosome 76AllAssembled moleculeUnlocalized scaffolds5,622,8242,233,1553,389,6699185,621,7242,232,1553,389,569858,0212,233,155476,590541000
Chromosome 77AllAssembled moleculeUnlocalized scaffolds6,534,2381,967,6884,566,550151146,530,9381,967,0884,563,850495,5211,967,688397,200927000
Chromosome 78AllAssembled moleculeUnlocalized scaffolds3,196,5541,871,2651,325,2896153,194,9541,870,1651,324,7891,871,2651,871,265226,246431000
Chromosome 79AllAssembled moleculeUnlocalized scaffolds4,343,8061,684,3312,659,4757164,290,0351,684,1182,605,917905,7841,684,331522,688624000
Chromosome 80AllAssembled moleculeUnlocalized scaffolds9,194,0341,363,5977,830,437141139,190,2341,363,5977,826,637834,8921,363,597834,89212012000
Chromosome 81AllAssembled moleculeUnlocalized scaffolds2,667,7131,225,5831,442,1303122,310,482934,9861,375,496822,7801,225,583822,7801477000
Chromosome 82AllAssembled moleculeUnlocalized scaffolds2,802,7871,113,7071,689,0807162,801,9871,113,1071,688,880380,3241,113,707269,486532000
Chromosome 83AllAssembled moleculeUnlocalized scaffolds4,004,756986,3973,018,359111104,003,456986,3973,017,059398,476986,397300,639505000
Chromosome 84AllAssembled moleculeUnlocalized scaffolds4,087,918585,3833,502,535141134,044,653549,8443,494,809274,842585,383271,209954000
Chromosome 85AllAssembled moleculeUnlocalized scaffolds1,801,366522,2411,279,1255141,800,091521,7411,278,350379,336522,241371,647413000
unplacedAssembled molecule83,802,6621,19583,558,464124,0781930
MoleculeTotal
Length
Mitochondrion MT16,201