Difference between revisions of "XENLA Genome"
From Marcotte Lab
(→Genome version) |
(→Genome version) |
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Line 67: | Line 67: | ||
|NIGv2 | |NIGv2 | ||
|2013 Feb. | |2013 Feb. | ||
+ | |2.89 Gbp | ||
+ | |0.72 Mbp | ||
+ | |5,394 | ||
+ | |Original name is 'xl.v2soap'; <br/>Internal Use Only. | ||
|- | |- | ||
|NIGv2c | |NIGv2c | ||
|2013 Feb. | |2013 Feb. | ||
+ | |2.88 Gbp | ||
+ | |0.71 Mbp | ||
+ | |5,377 | ||
+ | |Original name is 'xl.v2soap,GapClosed'; <br/>Can browse at NIG gbrowser. | ||
|- | |- | ||
|JGIv7a | |JGIv7a |
Revision as of 14:28, 8 May 2013
Genome browser
- XenBase - JGIv6
- NIMR, UK (Mike Gilchrist) - JGIv5(2011oct), JGIv6a(2012nov)
- NIG, Japan (Asao Fujiyama & Masanori Taira) - NIGv2
Genome version
Name | Release Date | Concat. Length (bp) | N50 (bp) | Scaffolds > 10kbp | Remarks |
---|---|---|---|---|---|
JGIv1 | 2010 Dec. | 2.30 Gbp | 8 kbp | 385,933 | Internal Use Only. |
JGIv5 | 2011 Oct. | 2.84 Gbp | 0.28 Mbp | 16,625 | Released in Xenopus PI Meeting. |
JGIv6 | 2012 Jul. | 2.75 Gbp | 0.70 Mbp | 8,426 | Officially released in XenBase. |
JGIv6a | 2012 Jul. | 2.75 Gbp | 0.70 Mbp | 8,426 | Officially released in XenBase; Minor update of JGIv6. |
NIGv1 | 2012 Nov. | 2.88 Gbp | 0.34 Mbp | 14,260 | Original name is 'xl.v1soap'; Internal Use Only. |
NIGv1ap | 2012 Nov. | 3.27 Gbp | 0.17 Mbp | 39,283 | Original name is 'xl.v3ap'(AllPath?); Internal Use Only. |
NIGv1m | 2012 Nov. | 2.84 Gbp | 0.28 Mbp | 82,132 | Original name is 'xl.v5m'; Internal Use Only. |
NIGv2 | 2013 Feb. | 2.89 Gbp | 0.72 Mbp | 5,394 | Original name is 'xl.v2soap'; Internal Use Only. |
NIGv2c | 2013 Feb. | 2.88 Gbp | 0.71 Mbp | 5,377 | Original name is 'xl.v2soap,GapClosed'; Can browse at NIG gbrowser. |
JGIv7a | 2013 Mar. | 2.72 Gbp | 1.15 Mbp | 5,714 | JGI7;Internal Use Only. |
JGIv7b | 2013 May | 2.78 Gbp | 3.49 Mbp | 2,598 | JGI7.2;Internal Use Only. |
Data Summary
Whole genome shotgun sequencing, JGI/UC Berkeley, USA
- Illumina mate-pair
Whole genome shotgun sequencing, NIG/U Tokyo, Japan
- Illumina paired-end (207 bp insertion): 1,004 M reads, 105 G bases
- Illumina paired-end (425 bp insertion): 672 M reads, 78 G bases
- Illumina paired-end (900 bp insertion): 695 M reads, 60 G bases
- Illumina mate-pair (1,387 bp insertion): 188 M reads, 15 G bases
- Illumina mate-pair (3,762 bp insertion): 188 M reads, 15 G bases
- Illumina mate-pair (9,850 bp insertion): 239 M reads, 18 G bases
Whole genome shotgun sequencing, UT Austin, USA
- SOLiD mate-pair