Fr3 conservation alignment: Difference between revisions

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<UL>
<UL>
<LI>Fugu 6-way [[Fr3 Genome size statistics]]</LI>
<LI>Fugu 8-way [[Fr3 Genome size statistics]]</LI>
<LI>Fugu 6-way [[Fr3 conservation lastz parameters]]</LI>
<LI>Fugu 8-way [[Fr3 conservation lastz parameters]]</LI>
<LI>all other [[UCSC Multiple Alignments]]</LI>
<LI>all other [[UCSC Multiple Alignments]]</LI>
</UL>
</UL>
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   <TD ALIGN=RIGHT>2010-06-07</TD>
   <TD ALIGN=RIGHT>2010-06-07</TD>
   <TD ALIGN=RIGHT>2009-09-02</TD>
   <TD ALIGN=RIGHT>2009-09-02</TD>
   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD>2011-12-01</TD><TD ALIGN=RIGHT>70.912%</TD>
</TR><TR>
</TR><TR>
   <TH>[ftp://ftp.broadinstitute.org/pub/assemblies/fish/tilapia/Orenil1/ 03]</TH><TH>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=oreNil1 oreNil1]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AERX01 Oreochromis<BR>niloticus]</TD><TD>Nile&nbsp;tilapia</TD>
   <TH>[ftp://ftp.broadinstitute.org/pub/assemblies/fish/tilapia/Orenil1/ 03]</TH><TH>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=oreNil1 oreNil1]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AERX01 Oreochromis<BR>niloticus]</TD><TD>Nile&nbsp;tilapia</TD>
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   <TD ALIGN=RIGHT>2011-11-30</TD>
   <TD ALIGN=RIGHT>2011-11-30</TD>
   <TD ALIGN=RIGHT>2011-11-30</TD>
   <TD ALIGN=RIGHT>2011-11-30</TD>
   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD>2011-12-02</TD><TD ALIGN=RIGHT>57.240%</TD>
</TR><TR>
</TR><TR>
   <TH>[ftp://ftp.broadinstitute.org/pub/assemblies/fish/stickleback/gasAcu1/ 04]</TH><TH>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=gasAcu1 gasAcu1]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AANH01 Gasterosteus<BR>aculeatus]</TD><TD>Stickleback</TD>
   <TH>[ftp://ftp.broadinstitute.org/pub/assemblies/fish/stickleback/gasAcu1/ 04]</TH><TH>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=gasAcu1 gasAcu1]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AANH01 Gasterosteus<BR>aculeatus]</TD><TD>Stickleback</TD>
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   <TD ALIGN=RIGHT>2009-08-15</TD>
   <TD ALIGN=RIGHT>2009-08-15</TD>
   <TD ALIGN=RIGHT>2009-08-15</TD>
   <TD ALIGN=RIGHT>2009-08-15</TD>
   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD>2011-12-02</TD><TD ALIGN=RIGHT>55.527%</TD>
</TR><TR>
  <TH>[http://www.ncbi.nlm.nih.gov/genome/2661 05]</TH><TH>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=gadMor1 gadMor1]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=CAEA00 Gadus<BR>morhua]</TD><TD>Atlantic&nbsp;cod</TD>
  <TD>May.&nbsp;2010&nbsp;(Genofisk&nbsp;GadMor_May2010/gadMor1)</TD>
  <TD>Genofisk GadMor_May2010 (GCA_000231765.1)</TD>
  <TD ALIGN=RIGHT>2011-12-29</TD>
  <TD ALIGN=RIGHT>2012-01-04</TD>
  <TD>2012-01-14</TD><TD ALIGN=RIGHT>30.327%</TD>
</TR><TR>
</TR><TR>
   <TH>[http://dolphin.lab.nig.ac.jp/medaka/index.php 05]</TH><TH>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=oryLat2 oryLat2]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=BAAE01 Oryzias<BR>latipes]</TD><TD>Medaka</TD>
   <TH>[http://dolphin.lab.nig.ac.jp/medaka/index.php 06]</TH><TH>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=oryLat2 oryLat2]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=BAAE01 Oryzias<BR>latipes]</TD><TD>Medaka</TD>
   <TD>Oct.&nbsp;2005&nbsp;(NIG/UT&nbsp;MEDAKA1/oryLat2)</TD>
   <TD>Oct.&nbsp;2005&nbsp;(NIG/UT&nbsp;MEDAKA1/oryLat2)</TD>
   <TD>NIG and Tokyo Univ MEDAKA1 (NCBI project 16702, BAAF04000000)</TD>
   <TD>NIG and Tokyo Univ MEDAKA1 (NCBI project 16702, BAAF04000000)</TD>
   <TD ALIGN=RIGHT>2009-08-15</TD>
   <TD ALIGN=RIGHT>2009-08-15</TD>
   <TD ALIGN=RIGHT>2009-08-15</TD>
   <TD ALIGN=RIGHT>2009-08-15</TD>
   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD>2011-12-02</TD><TD ALIGN=RIGHT>43.863%</TD>
</TR><TR>
</TR><TR>
   <TH>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/vertebrates_other/Danio_rerio/Zv9/ 06]</TH><TH>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=danRer7 danRer7]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=CABZ00 Danio<BR>rerio]</TD><TD>Zebrafish</TD>
   <TH>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/vertebrates_other/Danio_rerio/Zv9/ 07]</TH><TH>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=danRer7 danRer7]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=CABZ00 Danio<BR>rerio]</TD><TD>Zebrafish</TD>
   <TD>Jul.&nbsp;2010&nbsp;(Zv9/danRer7)</TD>
   <TD>Jul.&nbsp;2010&nbsp;(Zv9/danRer7)</TD>
   <TD>Wellcome Trust Sanger Institute Zv9 (GCA_000002035.2)</TD>
   <TD>Wellcome Trust Sanger Institute Zv9 (GCA_000002035.2)</TD>
   <TD ALIGN=RIGHT>2010-12-03</TD>
   <TD ALIGN=RIGHT>2010-12-03</TD>
   <TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=RIGHT>N/A</TD>
   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD>2011-12-02</TD><TD ALIGN=RIGHT>22.823%</TD>
</TR><TR>
  <TH>[http://www.ncbi.nlm.nih.gov/bioproject/56111 08]</TH><TH>[http://genome-preview.cse.ucsc.edu/cgi-bin/hgTracks?db=latCha1 latCha1]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AFYH00 Latimeria<BR>chalumnae]</TD><TD>Coelacanth</TD>
  <TD>Aug.&nbsp;2011&nbsp;(LatCha1/latCha1)</TD>
  <TD>Broad LatCha1 (GCA_000225785.1)</TD>
  <TD ALIGN=RIGHT>2012-01-11</TD>
  <TD ALIGN=RIGHT>2012-01-12</TD>
  <TD>2012-01-13</TD><TD ALIGN=RIGHT>13.735%</TD>
</TR>
</TR>
</TABLE>
</TABLE>

Latest revision as of 22:26, 29 February 2012

see also

do not edit

This table is automatically generated off-line from the UCSC databases. Please do not edit it.

URL to
assembly
sequence		 UCSC db name/
genome-preview
browser		 Scientific name/
assembly information		 Common
name		 assembly date source
version		 Repeat
Masker		 Window
Masker		 chain
on fr3		 % of fr3
matched
(chainLink table)
01fr3Takifugu
Rubripes		Fugu Oct. 2011 (FUGU5/fr3) Fugu Genome Sequencing Consortium - FUGU5 (NCBI project 1434, GCA_000180615.2) 2011-11-16 2011-11-17 N/AN/A
02tetNig2Tetraodon
nigroviridis		Tetraodon Mar. 2007 (Genoscope 8.0/tetNig2) Genoscope Tetraodon v8.0 (NCBI project 12350, CAAE01000000) 2010-06-07 2009-09-02 2011-12-0170.912%
03oreNil1Oreochromis
niloticus		Nile tilapia Jan. 2011 (Nile tilapia/oreNil1) Broad Institute of MIT and Harvard Orenil1.0 (GCA_000188235.1) 2011-11-30 2011-11-30 2011-12-0257.240%
04gasAcu1Gasterosteus
aculeatus		Stickleback Feb. 2006 (Broad/gasAcu1) Broad Institute gasAcu1 (1.0) (NCBI project 13579, AANH01000000) 2009-08-15 2009-08-15 2011-12-0255.527%
05gadMor1Gadus
morhua		Atlantic cod May. 2010 (Genofisk GadMor_May2010/gadMor1) Genofisk GadMor_May2010 (GCA_000231765.1) 2011-12-29 2012-01-04 2012-01-1430.327%
06oryLat2Oryzias
latipes		Medaka Oct. 2005 (NIG/UT MEDAKA1/oryLat2) NIG and Tokyo Univ MEDAKA1 (NCBI project 16702, BAAF04000000) 2009-08-15 2009-08-15 2011-12-0243.863%
07danRer7Danio
rerio		Zebrafish Jul. 2010 (Zv9/danRer7) Wellcome Trust Sanger Institute Zv9 (GCA_000002035.2) 2010-12-03 N/A 2011-12-0222.823%
08latCha1Latimeria
chalumnae		Coelacanth Aug. 2011 (LatCha1/latCha1) Broad LatCha1 (GCA_000225785.1) 2012-01-11 2012-01-12 2012-01-1313.735%
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