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Source database (GenBank or RefSeq) File type

CHM1_1.0

This assembly has been replaced. See current version

Organism name:

Homo sapiens (human)

BioProject:

PRJNA176729

Submitter:

Washington University School of Medicine

Date:

2012/10/19

Assembly level:

Chromosome

Genome representation:

full

GenBank assembly accession:

GCA_000306695.1 (replaced)

RefSeq assembly accession:

GCF_000306695.1 (suppressed) see latest RefSeq assemblies for this species

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in GenBank: chromosome MT

Data displayed for GenBank version

WGS Project:

AMYH01

Assembly method:

SRPRISM v. 2.3; ARGO v. 0.1

Genome coverage:

38x

Sequencing technology:

Illumina

IDs: 448378 [UID] 448058 [GenBank] 448378 [RefSeq]

See Genome Information for Homo sapiens

Pathogen Detection Resources

There are 1094 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_000306695.2	≠	GCF_000306695.2	CHM1_1.1	Chromosome	Latest GenBank, RefSeq suppressed
GCA_000306695.1	≠	GCF_000306695.1	CHM1_1.0	Chromosome	Replaced GenBank, RefSeq suppressed

Comment

Reference-guided assembly based on human assembly GRCh37. Reads were aligned to human GRCh37 primary assembly, excluding Y chromosome, using SRPRISM version 2.3. ARGO, a reference-guided assembler developed at NCBI, was used to produce an initial assembly. BAC clone sequences ... for 387 clones for CHM1 were aligned to the initial assembly and decisions for the best location to incorporate the clones were made manually. Finally, the de novo assembly that was generated by Washington University using SOAP was incorporated to produce the submitted assembly, CHM1_1.0.  more

Global statistics

Total sequence length	2,972,000,932
Total ungapped length	2,831,796,747
Gaps between scaffolds	118
Number of scaffolds	2,178
Scaffold N50	59,349,119
Scaffold L50	17
Number of contigs	25,390
Contig N50	364,294
Contig L50	2,258
Total number of chromosomes and plasmids	24
Number of component sequences (WGS or clone)	25,390

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM001609.1	=	NC_018912.1	0
Chromosome 2	CM001610.1	=	NC_018913.1	0
Chromosome 3	CM001611.1	=	NC_018914.1	0
Chromosome 4	CM001612.1	=	NC_018915.1	0
Chromosome 5	CM001613.1	=	NC_018916.1	0
Chromosome 6	CM001614.1	=	NC_018917.1	0
Chromosome 7	CM001615.1	=	NC_018918.1	0
Chromosome 8	CM001616.1	=	NC_018919.1	0
Chromosome 9	CM001617.1	=	NC_018920.1	0
Chromosome 10	CM001618.1	=	NC_018921.1	0
Chromosome 11	CM001619.1	=	NC_018922.1	0
Chromosome 12	CM001620.1	=	NC_018923.1	0
Chromosome 13	CM001621.1	=	NC_018924.1	0
Chromosome 14	CM001622.1	=	NC_018925.1	0
Chromosome 15	CM001623.1	=	NC_018926.1	0
Chromosome 16	CM001624.1	=	NC_018927.1	0
Chromosome 17	CM001625.1	=	NC_018928.1	0
Chromosome 18	CM001626.1	=	NC_018929.1	0
Chromosome 19	CM001627.1	=	NC_018930.1	0
Chromosome 20	CM001628.1	=	NC_018931.1	0
Chromosome 21	CM001629.1	=	NC_018932.1	0
Chromosome 22	CM001630.1	=	NC_018933.1	0
Chromosome X	CM001631.1	=	NC_018934.1	0
unplaced	n/a	n/a	n/a	2,036

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps	Unspanned Gaps
All	2,971,984,367	2,177	2,831,780,182	59,349,119	23,212	118
Chromosome 1	256,053,066	16	229,446,308	62,615,640	1,939	15
Chromosome 2	242,548,366	9	236,586,515	138,392,755	1,597	8
Chromosome 3	197,815,086	4	194,488,419	100,442,131	898	3
Chromosome 4	190,793,864	7	187,010,113	131,099,556	981	6
Chromosome 5	181,123,328	4	176,540,666	46,340,565	1,178	3
Chromosome 6	171,078,509	3	166,926,695	58,814,369	912	2
Chromosome 7	162,460,705	5	154,462,987	57,991,215	1,300	4
Chromosome 8	146,570,593	4	142,391,778	39,707,648	943	3
Chromosome 9	141,180,025	24	115,268,187	62,338,382	2,754	23
Chromosome 10	136,015,054	8	129,940,692	79,490,249	1,283	7
Chromosome 11	134,810,514	4	130,599,888	41,543,002	901	3
Chromosome 12	133,633,114	3	130,139,093	94,808,433	769	2
Chromosome 13	96,197,782	2	95,445,050	93,296,617	492	1
Chromosome 14	88,357,720	1	87,990,203	88,357,720	683	0
Chromosome 15	82,254,405	5	80,695,205	73,034,944	872	4
Chromosome 16	91,293,083	4	79,103,131	41,995,713	987	3
Chromosome 17	82,312,085	5	78,281,111	55,517,404	784	4
Chromosome 18	77,855,196	2	74,570,797	59,349,119	378	1
Chromosome 19	59,267,824	4	55,409,988	31,604,748	900	3
Chromosome 20	62,909,984	3	59,354,075	33,163,061	466	2
Chromosome 21	38,611,507	7	35,013,314	33,712,538	220	6
Chromosome 22	35,186,150	3	34,470,382	30,634,567	579	2
Chromosome X	155,127,553	14	149,116,931	34,942,952	1,394	13
unplaced	8,528,854	2,036	8,528,654	6,545	2	0

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CHM1_1.0

See Genome Information for Homo sapiens

Pathogen Detection Resources

There are 1094 assemblies for this organism

History (Show revision history)

Comment

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Assembly Unit Name
Primary Assembly
non-nuclear