Ce10 conservation alignment: Difference between revisions

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<TABLE BORDER=1>
<TABLE BORDER=1>
<TR>
<TR>
   <TH>URL&nbsp;to<BR>assembly<BR>information</TH>
   <TH>URL&nbsp;to<BR>assembly<BR>sequence</TH>
   <TH>UCSC&nbsp;db&nbsp;name/<BR>genome-test<BR>browser</TH>
   <TH>UCSC&nbsp;db&nbsp;name/<BR>genome-test<BR>browser</TH>
   <TD>Scientific&nbsp;name/<BR>assembly&nbsp;sequence</TD>
   <TD>Scientific&nbsp;name/<BR>assembly&nbsp;information</TD>
   <TD>Common<BR>name</TD>
   <TD>Common<BR>name</TD>
   <TD>assembly&nbsp;date</TD>
   <TD>assembly&nbsp;date</TD>
Line 21: Line 21:
   <TD>Repeat<BR>Masker</TD>
   <TD>Repeat<BR>Masker</TD>
   <TD>Window<BR>Masker</TD>
   <TD>Window<BR>Masker</TD>
  <TD>chain<BR>on&nbsp;ce10</TD>
  <TD>%&nbsp;of&nbsp;ce10<BR>matched<BR>(chainLink&nbsp;table)</TD>
</TR>
</TR>
<TR>
<TR>
   <TH>[http://wiki.wormbase.org/index.php/Caenorhabditis_elegans 01]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=ce10 ce10]</TH><TD>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS220/genomes/c_elegans/ Caenorhabditis<BR>elegans]</TD><TD>C.&nbsp;elegans</TD>
   <TH>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS220/genomes/c_elegans/ 01]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=ce10 ce10]</TH><TD>[http://wiki.wormbase.org/index.php/Caenorhabditis_elegans Caenorhabditis<BR>elegans]</TD><TD>C.&nbsp;elegans</TD>
   <TD>Oct.&nbsp;2010&nbsp;(WS220/ce10)</TD>
   <TD>Oct.&nbsp;2010&nbsp;(WS220/ce10)</TD>
   <TD>Washington University School of Medicine GSC and Sanger Institute WS220</TD>
   <TD>Washington University School of Medicine GSC and Sanger Institute WS220</TD>
   <TD ALIGN=RIGHT>2011-05-23</TD>
   <TD ALIGN=RIGHT>2011-05-23</TD>
   <TD ALIGN=RIGHT>N/A</TD>
   <TD ALIGN=RIGHT>N/A</TD>
  <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
</TR><TR>
</TR><TR>
   <TH>[http://www.sanger.ac.uk/Projects/C_briggsae/ 02]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=cb4 cb4]</TH><TD>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS225/genomes/c_briggsae/ Caenorhabditis<BR>briggsae]</TD><TD>C.&nbsp;briggsae</TD>
   <TH>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS225/genomes/c_briggsae/ 02]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=cb4 cb4]</TH><TD>[http://www.sanger.ac.uk/Projects/C_briggsae/ Caenorhabditis<BR>briggsae]</TD><TD>C.&nbsp;briggsae</TD>
   <TD>Apr.&nbsp;2011&nbsp;(WS225/cb4)</TD>
   <TD>Apr.&nbsp;2011&nbsp;(WS225/cb4)</TD>
   <TD>Washington University School of Medicine GSC and Sanger Institute cb4 </TD>
   <TD>Washington University School of Medicine GSC and Sanger Institute cb4 </TD>
   <TD ALIGN=RIGHT>2011-05-24</TD>
   <TD ALIGN=RIGHT>2011-05-24</TD>
   <TD ALIGN=RIGHT>2011-05-24</TD>
   <TD ALIGN=RIGHT>2011-05-24</TD>
  <TD>2011-06-07</TD><TD ALIGN=RIGHT>39.386%</TD>
</TR><TR>
</TR><TR>
   <TH>[http://genome.wustl.edu/genomes/view/caenorhabditis_remanei/ 03]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeRem4 caeRem4]</TH><TD>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS220/genomes/c_remanei/ Caenorhabditis<BR>remanei]</TD><TD>C.&nbsp;remanei</TD>
   <TH>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/invertebrates/Caenorhabditis_sp_9_MAF_2010/Caenorhabditis_sp9_JU1422-3.0.1/ 03]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp91 caeSp91]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AENM01 Caenorhabditis<BR>sp9.<BR>JU1422]</TD><TD>C.&nbsp;sp.&nbsp;9&nbsp;ju1422</TD>
  <TD>Nov.&nbsp;2010&nbsp;(WUSTL&nbsp;3.0.1/caeSp91)</TD>
  <TD>Washington University School of Medicine GSC Caenorhabditis sp. 9 JU1422 MAF-2010 3.0.1 (GCA_000186805.1)</TD>
  <TD ALIGN=RIGHT>2011-05-27</TD>
  <TD ALIGN=RIGHT>2011-05-31</TD>
  <TD>2011-06-07</TD><TD ALIGN=RIGHT>42.169%</TD>
</TR><TR>
  <TH>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS220/genomes/c_remanei/ 04]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeRem4 caeRem4]</TH><TD>[http://genome.wustl.edu/genomes/view/caenorhabditis_remanei/ Caenorhabditis<BR>remanei]</TD><TD>C.&nbsp;remanei</TD>
   <TD>Jul.&nbsp;2007&nbsp;(WS220/caeRem4)</TD>
   <TD>Jul.&nbsp;2007&nbsp;(WS220/caeRem4)</TD>
   <TD>Washington University School of Medicine GSC C. remanei 15.0.1</TD>
   <TD>Washington University School of Medicine GSC C. remanei 15.0.1</TD>
   <TD ALIGN=RIGHT>2011-05-25</TD>
   <TD ALIGN=RIGHT>2011-05-25</TD>
   <TD ALIGN=RIGHT>2011-05-25</TD>
   <TD ALIGN=RIGHT>2011-05-25</TD>
  <TD>2011-06-07</TD><TD ALIGN=RIGHT>41.722%</TD>
</TR><TR>
</TR><TR>
   <TH>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=ABEG02 04]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caePb3 caePb3]</TH><TD>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS220/genomes/c_brenneri/ Caenorhabditis<BR>brenneri]</TD><TD>C.&nbsp;brenneri</TD>
   <TH>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/invertebrates/Caenorhabditis_sp_9_MAF_2010/Caenorhabditis_sp9_JU1422-3.0.1/ 05]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp111 caeSp111]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AEKS01 Caenorhabditis<BR>sp.<BR>11<BR>JU1373]</TD><TD>C.&nbsp;sp.&nbsp;11&nbsp;ju1373</TD>
   <TD>Nov.&nbsp;2010&nbsp;(WS220/caePb3)</TD>
   <TD>Nov.&nbsp;2010&nbsp;(WUSTL&nbsp;3.0.1/caeSp111)</TD>
   <TD>Washington University School of Medicine GSC Caenorhabditis brenneri(PB2801) 6.0.1b</TD>
   <TD>Washington University School of Medicine GSC Caenorhabditis sp. 9 JU1422 MAF-2010 3.0.1 (GCA_000186765.1)</TD>
   <TD ALIGN=RIGHT>2011-05-26</TD>
   <TD ALIGN=RIGHT>2011-05-31</TD>
   <TD ALIGN=RIGHT>2011-05-26</TD>
   <TD ALIGN=RIGHT>2011-05-31</TD>
  <TD>2011-06-07</TD><TD ALIGN=RIGHT>37.876%</TD>
</TR><TR>
</TR><TR>
   <TH>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=ABLE03 05]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeJap4 caeJap4]</TH><TD>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS220/genomes/c_japonica/ Caenorhabditis<BR>japonica]</TD><TD>C.&nbsp;japonica</TD>
   <TH>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS220/genomes/c_brenneri/ 06]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caePb3 caePb3]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=ABEG02 Caenorhabditis<BR>brenneri]</TD><TD>C.&nbsp;brenneri</TD>
   <TD>Sep.&nbsp;2010&nbsp;(WS220/caeJap4)</TD>
   <TD>Nov.&nbsp;2010&nbsp;(C.&nbsp;brenneri&nbsp;6.0.1b/caePb3)</TD>
   <TD>Washington University School of Medicine GSC C. japonica 7.0.1</TD>
   <TD>The Caenorhabditis brenneri Sequencing and Analysis Consortium (GCA_000143925.2)</TD>
   <TD ALIGN=RIGHT>2011-05-26</TD>
   <TD ALIGN=RIGHT>2011-06-08</TD>
   <TD ALIGN=RIGHT>2011-05-26</TD>
   <TD ALIGN=RIGHT>2011-06-08</TD>
  <TD>2011-06-08</TD><TD ALIGN=RIGHT>40.644%</TD>
</TR><TR>
</TR><TR>
   <TH>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AENL01 06]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp71 caeSp71]</TH><TD>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/invertebrates/Caenorhabditis_sp_7_MAF_2007/Caenorhabditis_sp7_JU1286-4.0.1/ Caenorhabditis<BR>sp7.<BR>JU1286]</TD><TD>C.&nbsp;sp.&nbsp;7&nbsp;ju1286</TD>
   <TH>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/invertebrates/Caenorhabditis_sp_7_MAF_2007/Caenorhabditis_sp7_JU1286-4.0.1/ 07]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp71 caeSp71]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AENL01 Caenorhabditis<BR>sp7.<BR>JU1286]</TD><TD>C.&nbsp;sp.&nbsp;7&nbsp;ju1286</TD>
   <TD>Nov.&nbsp;2010&nbsp;(WUSTL&nbsp;4.0.1/caeSp71)</TD>
   <TD>Nov.&nbsp;2010&nbsp;(WUSTL&nbsp;4.0.1/caeSp71)</TD>
   <TD>Washington University School of Medicine GSC Caenorhabditis sp. 7 JU1286 MAF-2007 4.0.1 (GCA_000186785.1)</TD>
   <TD>Washington University School of Medicine GSC Caenorhabditis sp. 7 JU1286 MAF-2007 4.0.1 (GCA_000186785.1)</TD>
   <TD ALIGN=RIGHT>2011-05-27</TD>
   <TD ALIGN=RIGHT>2011-05-27</TD>
   <TD ALIGN=RIGHT>2011-05-27</TD>
   <TD ALIGN=RIGHT>2011-05-27</TD>
  <TD>2011-06-07</TD><TD ALIGN=RIGHT>40.236%</TD>
</TR><TR>
</TR><TR>
   <TH>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AENM01 07]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp91 caeSp91]</TH><TD>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/invertebrates/Caenorhabditis_sp_9_MAF_2010/Caenorhabditis_sp9_JU1422-3.0.1/ Caenorhabditis<BR>sp9.<BR>JU1422]</TD><TD>C.&nbsp;sp.&nbsp;9&nbsp;ju1422</TD>
   <TH>[ftp://ftp.sanger.ac.uk/pub/wormbase/WS220/genomes/c_japonica/ 08]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeJap4 caeJap4]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=ABLE03 Caenorhabditis<BR>japonica]</TD><TD>C.&nbsp;japonica</TD>
   <TD>Nov.&nbsp;2010&nbsp;(WUSTL&nbsp;3.0.1/caeSp91)</TD>
   <TD>Aug.&nbsp;2010&nbsp;(WUSTL&nbsp;7.0.1/caeJap4)</TD>
   <TD>Washington University School of Medicine GSC Caenorhabditis sp. 9 JU1422 MAF-2010 3.0.1 (GCA_000186805.1)</TD>
   <TD>Washington University School of Medicine GSC C. japonica 7.0.1 (GCA_000147155.1)</TD>
   <TD ALIGN=RIGHT>2011-05-27</TD>
   <TD ALIGN=RIGHT>2011-06-03</TD>
   <TD ALIGN=RIGHT>2011-05-31</TD>
   <TD ALIGN=RIGHT>2011-06-03</TD>
</TR><TR>
   <TD>2011-06-07</TD><TD ALIGN=RIGHT>27.737%</TD>
  <TH>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AEKS01 08]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeSp111 caeSp111]</TH><TD>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/invertebrates/Caenorhabditis_sp_9_MAF_2010/Caenorhabditis_sp9_JU1422-3.0.1/ Caenorhabditis<BR>sp.<BR>11<BR>JU1373]</TD><TD>C.&nbsp;sp.&nbsp;11&nbsp;ju1373</TD>
  <TD>Nov.&nbsp;2010&nbsp;(WUSTL&nbsp;3.0.1/caeSp111)</TD>
  <TD>Washington University School of Medicine GSC Caenorhabditis sp. 9 JU1422 MAF-2010 3.0.1 (GCA_000186765.1)</TD>
   <TD ALIGN=RIGHT>2011-05-31</TD>
  <TD ALIGN=RIGHT>2011-05-31</TD>
</TR><TR>
</TR><TR>
   <TH>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AEHI01 09]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeAng1 caeAng1]</TH><TD>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/invertebrates/Caenorhabditis_sp_PS1010/ps1010rel4/ Caenorhabditis<BR>angaria]</TD><TD>C.&nbsp;angaria</TD>
   <TH>[ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Eukaryotes/invertebrates/Caenorhabditis_sp_PS1010/ps1010rel4/ 09]</TH><TH>[http://genome-test.cse.ucsc.edu/cgi-bin/hgTracks?db=caeAng1 caeAng1]</TH><TD>[http://www.ncbi.nlm.nih.gov/Traces/wgs/?val=AEHI01 Caenorhabditis<BR>angaria]</TD><TD>C.&nbsp;angaria</TD>
   <TD>Oct.&nbsp;2010&nbsp;(WS225/caeAng1)</TD>
   <TD>Oct.&nbsp;2010&nbsp;(WS225/caeAng1)</TD>
   <TD>Division of Biology, California Institute of Technology(PS1010) ps10rel4 (GCA_000165025.1)</TD>
   <TD>Division of Biology, California Institute of Technology(PS1010) ps10rel4 (GCA_000165025.1)</TD>
   <TD ALIGN=RIGHT>2011-05-31</TD>
   <TD ALIGN=RIGHT>2011-05-31</TD>
   <TD ALIGN=RIGHT>2011-05-31</TD>
   <TD ALIGN=RIGHT>2011-05-31</TD>
  <TD>2011-06-08</TD><TD ALIGN=RIGHT>17.625%</TD>
</TR>
</TR>
</TABLE>
</TABLE>

Revision as of 23:18, 8 June 2011

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-test
browser		 Scientific name/
assembly information		 Common
name		 assembly date source
version		 Repeat
Masker		 Window
Masker		 chain
on ce10		 % of ce10
matched
(chainLink table)
01ce10Caenorhabditis
elegans		C. elegans Oct. 2010 (WS220/ce10) Washington University School of Medicine GSC and Sanger Institute WS220 2011-05-23 N/A N/AN/A
02cb4Caenorhabditis
briggsae		C. briggsae Apr. 2011 (WS225/cb4) Washington University School of Medicine GSC and Sanger Institute cb4 2011-05-24 2011-05-24 2011-06-0739.386%
03caeSp91Caenorhabditis
sp9.
JU1422		C. sp. 9 ju1422 Nov. 2010 (WUSTL 3.0.1/caeSp91) Washington University School of Medicine GSC Caenorhabditis sp. 9 JU1422 MAF-2010 3.0.1 (GCA_000186805.1) 2011-05-27 2011-05-31 2011-06-0742.169%
04caeRem4Caenorhabditis
remanei		C. remanei Jul. 2007 (WS220/caeRem4) Washington University School of Medicine GSC C. remanei 15.0.1 2011-05-25 2011-05-25 2011-06-0741.722%
05caeSp111Caenorhabditis
sp.
11
JU1373		C. sp. 11 ju1373 Nov. 2010 (WUSTL 3.0.1/caeSp111) Washington University School of Medicine GSC Caenorhabditis sp. 9 JU1422 MAF-2010 3.0.1 (GCA_000186765.1) 2011-05-31 2011-05-31 2011-06-0737.876%
06caePb3Caenorhabditis
brenneri		C. brenneri Nov. 2010 (C. brenneri 6.0.1b/caePb3) The Caenorhabditis brenneri Sequencing and Analysis Consortium (GCA_000143925.2) 2011-06-08 2011-06-08 2011-06-0840.644%
07caeSp71Caenorhabditis
sp7.
JU1286		C. sp. 7 ju1286 Nov. 2010 (WUSTL 4.0.1/caeSp71) Washington University School of Medicine GSC Caenorhabditis sp. 7 JU1286 MAF-2007 4.0.1 (GCA_000186785.1) 2011-05-27 2011-05-27 2011-06-0740.236%
08caeJap4Caenorhabditis
japonica		C. japonica Aug. 2010 (WUSTL 7.0.1/caeJap4) Washington University School of Medicine GSC C. japonica 7.0.1 (GCA_000147155.1) 2011-06-03 2011-06-03 2011-06-0727.737%
09caeAng1Caenorhabditis
angaria		C. angaria Oct. 2010 (WS225/caeAng1) Division of Biology, California Institute of Technology(PS1010) ps10rel4 (GCA_000165025.1) 2011-05-31 2011-05-31 2011-06-0817.625%
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