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Source database (GenBank or RefSeq) File type

Rrattus_CSIRO_v1

Organism name:

Rattus rattus (black rat)

Isolate:

New Zealand

Sex:

male

BioSample:

SAMN12855339

BioProject:

PRJNA574245

Submitter:

CSIRO

Date:

2020/03/04

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_011064425.1 (latest)

RefSeq assembly accession:

GCF_011064425.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosome MT

Data displayed for RefSeq version

WGS Project:

JAAIVD01

Assembly method:

Flye v. 2.5; allhic v. 0.9.8; racon v. 1.4.6

Expected final version:

yes

Genome coverage:

130.0x

Sequencing technology:

Illumina HiSeq; Oxford Nanopore

IDs: 6098321 [UID] 17349558 [GenBank] 17589068 [RefSeq]

See Genome Information for Rattus rattus

Pathogen Detection Resources

There are 2 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_011064425.1	≠	GCF_011064425.1	Rrattus_CSIRO_v1	Chromosome	Latest GenBank, Latest RefSeq

Comment

This is in CSIRO Data Access Portal, doi.org/10.25919/5e4f60ea8b64e

Global statistics

Total sequence length	2,382,787,281
Total ungapped length	2,382,234,560
Gaps between scaffolds	0
Number of scaffolds	2,173
Scaffold N50	158,824,752
Scaffold L50	6
Number of contigs	7,847
Contig N50	1,635,336
Contig L50	371
Total number of chromosomes and plasmids	21
Number of component sequences (WGS or clone)	2,173

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM021548.1	=	NC_046154.1	0
Chromosome 2	CM021549.1	=	NC_046155.1	0
Chromosome 3	CM021550.1	=	NC_046156.1	0
Chromosome 4	CM021551.1	=	NC_046157.1	0
Chromosome 5	CM021552.1	=	NC_046158.1	0
Chromosome 6	CM021553.1	=	NC_046159.1	0
Chromosome 7	CM021554.1	=	NC_046160.1	0
Chromosome 8	CM021555.1	=	NC_046161.1	0
Chromosome 9	CM021556.1	=	NC_046162.1	0
Chromosome 10	CM021557.1	=	NC_046163.1	0
Chromosome 11	CM021558.1	=	NC_046164.1	0
Chromosome 12	CM021559.1	=	NC_046165.1	0
Chromosome 13	CM021560.1	=	NC_046166.1	0
Chromosome 14	CM021561.1	=	NC_046167.1	0
Chromosome 15	CM021562.1	=	NC_046168.1	0
Chromosome 16	CM021563.1	=	NC_046169.1	0
Chromosome 17	CM021564.1	=	NC_046170.1	0
Chromosome 18	CM021565.1	=	NC_046171.1	0
Chromosome X	CM021566.1	=	NC_046172.1	0
Chromosome Y	CM021567.1	=	NC_046173.1	0
unplaced	n/a	n/a	n/a	2,152

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	2,382,770,976	2,172	2,382,218,255	158,824,752	5,674
Chromosome 1	272,949,890	1	272,896,538	272,949,890	588
Chromosome 2	230,245,215	1	230,188,544	230,245,215	528
Chromosome 3	223,390,290	1	223,338,773	223,390,290	545
Chromosome 4	182,825,184	1	182,794,319	182,825,184	330
Chromosome 5	158,824,752	1	158,796,953	158,824,752	276
Chromosome 6	159,576,916	1	159,543,396	159,576,916	338
Chromosome 7	130,838,749	1	130,817,068	130,838,749	231
Chromosome 8	115,328,989	1	115,310,047	115,328,989	196
Chromosome 9	96,709,702	1	96,697,279	96,709,702	146
Chromosome 10	94,975,465	1	94,955,529	94,975,465	205
Chromosome 11	98,614,853	1	98,596,403	98,614,853	180
Chromosome 12	94,088,038	1	94,072,933	94,088,038	165
Chromosome 13	78,818,511	1	78,804,198	78,818,511	160
Chromosome 14	81,994,099	1	81,980,827	81,994,099	156
Chromosome 15	79,318,243	1	79,302,089	79,318,243	143
Chromosome 16	44,431,012	1	44,420,970	44,431,012	74
Chromosome 17	48,504,124	1	48,495,987	48,504,124	90
Chromosome 18	49,846,535	1	49,834,187	49,846,535	100
Chromosome X	130,373,513	1	130,259,469	130,373,513	1,180
Chromosome Y	2,293,298	1	2,290,388	2,293,298	30
unplaced	8,823,598	2,152	8,822,358	4,418	13

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Rrattus_CSIRO_v1

See Genome Information for Rattus rattus

Pathogen Detection Resources

There are 2 assemblies for this organism

History (Show revision history)

Comment

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Assembly Unit Name
Primary Assembly
non-nuclear