Hg19 conservation lastz parameters: Difference between revisions

From genomewiki
Jump to navigationJump to search
(status update and now in phylo order)
(status update all DEF files not available)
Line 89: Line 89:
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>


   <TD>in progress</TD><TD ALIGN=RIGHT>in progress</TD>
   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
</TR><TR>
</TR><TR>
   <TH>Dolphin&nbsp;turTru1</TH>
   <TH>Dolphin&nbsp;turTru1</TH>
Line 95: Line 95:
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>


   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD>2009-05-29</TD><TD ALIGN=RIGHT>48.400%</TD>
</TR><TR>
</TR><TR>
   <TH>Squirrel&nbsp;speTri1</TH>
   <TH>Squirrel&nbsp;speTri1</TH>
Line 149: Line 149:
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>


   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD>2009-05-29</TD><TD ALIGN=RIGHT>33.676%</TD>
</TR><TR>
</TR><TR>
   <TH>Microbat&nbsp;myoLuc1</TH>
   <TH>Microbat&nbsp;myoLuc1</TH>
Line 167: Line 167:
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>


   <TD>2009-05-22</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD>2009-05-29</TD><TD ALIGN=RIGHT>N/A</TD>
</TR><TR>
</TR><TR>
   <TH>Rock hyrax&nbsp;proCap1</TH>
   <TH>Rock hyrax&nbsp;proCap1</TH>
Line 176: Line 176:
</TR><TR>
</TR><TR>
   <TH>Kangaroo rat&nbsp;dipOrd1</TH>
   <TH>Kangaroo rat&nbsp;dipOrd1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>50</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
 
  <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
</TR><TR>
</TR><TR>
   <TH>Pika&nbsp;ochPri2</TH>
   <TH>Pika&nbsp;ochPri2</TH>
  <TD>no</TD><TD>50</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>


   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
</TR><TR>
</TR><TR>
   <TH>Hedgehog&nbsp;eriEur1</TH>
   <TH>Hedgehog&nbsp;eriEur1</TH>
   <TD COLSPAN=13 ALIGN=center>TBD</TD>
   <TD>no</TD><TD>50</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
 
  <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
</TR><TR>
</TR><TR>
   <TH>Tenrec&nbsp;echTel1</TH>
   <TH>Tenrec&nbsp;echTel1</TH>
   <TD>no</TD><TD>50</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>no</TD><TD>50</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
  <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>


  <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
   <TD>2009-05-28</TD><TD ALIGN=RIGHT>23.120%</TD>
   <TD>2009-05-28</TD><TD ALIGN=RIGHT>23.120%</TD>
</TR><TR>
</TR><TR>
   <TH>Mouse&nbsp;mm9</TH>
   <TH>Mouse&nbsp;mm9</TH>
   <TD>yes</TD><TD>40M</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>yes</TD><TD>40M</TD><TD>3000</TD><TD>3000</TD><TD>default</TD>
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
   <TD>2009-05-13</TD><TD ALIGN=RIGHT>35.299%</TD>
   <TD>2009-05-13</TD><TD ALIGN=RIGHT>35.299%</TD>
</TR><TR>
</TR><TR>
   <TH>Rat&nbsp;rn4</TH>
   <TH>Rat&nbsp;rn4</TH>
Line 208: Line 215:
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
   <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>


   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD>2009-05-29</TD><TD ALIGN=RIGHT>N/A</TD>
</TR><TR>
</TR><TR>
   <TH>Wallaby&nbsp;macEug1</TH>
   <TH>Wallaby&nbsp;macEug1</TH>
Line 220: Line 227:
   <TD>3400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>
   <TD>3400</TD><TD>lastz</TD><TD>30</TD><TD>0</TD><TD>400</TD><TD>1</TD>


   <TD>N/A</TD><TD ALIGN=RIGHT>N/A</TD>
   <TD>2009-05-29</TD><TD ALIGN=RIGHT>N/A</TD>
</TR><TR>
</TR><TR>
   <TH>Platypus&nbsp;ornAna1</TH>
   <TH>Platypus&nbsp;ornAna1</TH>

Revision as of 17:33, 29 May 2009

See Also:

do not edit, automatically generated table

query abridged
repeats(no)		 M(40M)K(3000) L(3000)QY(9400) program
run		E(30)H(0) O(400)T(1) chain table
date		 % of hg19
matched
(chainLink table)
Chimp panTro2 no25445003000human_chimp.v2.q 15000lastz15006002 2009-03-2094.846%
Gorilla gorGor1 no25445003000human_chimp.v2.q 15000lastz15006002 2009-03-2259.484%
Orangutan ponAbe2 no25445003000human_chimp.v2.q 15000lastz15006002 2009-05-1491.350%
Rhesus rheMac2 no25445003000human_chimp.v2.q 15000lastz15006002 2009-05-1482.744%
Baboon papHam1 no25445003000human_chimp.v2.q 15000lastz15006002 2009-05-2082.810%
Marmoset calJac1 no25445003000human_chimp.v2.q 15000lastz15006002 2009-05-1470.860%
Tarsier tarSyr1 no40M30003000default 9400lastz3004001 2009-05-1547.830%
Mouse lemur micMur1 no40M30003000default 9400lastz3004001 2009-05-2246.519%
Bushbaby otoGar1 no40M30003000default 9400lastz3004001 2009-05-1543.644%
Horse equCab2 no40M30003000default 9400lastz3004001 2009-05-2257.051%
TreeShrew tupBel1 no40M30003000default 9400lastz3004001 N/AN/A
Dolphin turTru1 no40M30003000default 9400lastz3004001 2009-05-2948.400%
Squirrel speTri1 no40M30003000default 9400lastz3004001 2009-05-1535.712%
Alpaca vicPac1 no40M30003000default 9400lastz3004001 N/AN/A
Sloth choHof1 no40M30003000default 9400lastz3004001 2009-05-2634.376%
Megabat pteVam1 no40M30003000default 9400lastz3004001 2009-05-2145.416%
Elephant loxAfr2 no5030003000default 9400lastz3004001 2009-05-2835.153%
Cat felCat3 no40M30003000default 9400lastz3004001 2009-05-1435.717%
Dog canFam2 yes40M30003000default 9400lastz3004001 2009-05-1452.879%
Armadillo dasNov2 no5030003000default 9400lastz3004001 2009-05-2733.543%
Rabbit oryCun1 no5030003000default 9400lastz3004001 2009-05-2933.676%
Microbat myoLuc1 no40M30003000default 9400lastz3004001 N/AN/A
Cow bosTau4 no40M30003000default 9400lastz3004001 2009-05-2146.507%
Guinea Pig cavPor3 no40M30003000default 9400lastz3004001 2009-05-29N/A
Rock hyrax proCap1 no5030003000default 9400lastz3004001 2009-05-2630.864%
Kangaroo rat dipOrd1 no5030003000default 9400lastz3004001 N/AN/A
Pika ochPri2 no5030003000default 9400lastz3004001 N/AN/A
Hedgehog eriEur1 no5030003000default 9400lastz3004001 N/AN/A
Tenrec echTel1 no5030003000default 9400lastz3004001 2009-05-2823.120%
Mouse mm9 yes40M30003000default 9400lastz3004001 2009-05-1335.299%
Rat rn4 yes40M30003000default 9400lastz3004001 2009-05-1332.879%
Shrew sorAra1 no5030003000default 9400lastz3004001 2009-05-29N/A
Wallaby macEug1 no5030003000default 9400lastz3004001 N/AN/A
Opossum monDom5 no5022006000HoxD55.q 3400lastz3004001 2009-05-29N/A
Platypus ornAna1 no40M22006000HoxD55.q 3400lastz3020004001 2009-05-277.627%
Chicken galGal3 yes40M220010000HoxD55.q 3400lastz3020004001 2009-05-143.591%
Zebra finch taeGut1 no40M220010000HoxD55.q 3400lastz3020004001 2009-05-263.496%
Lizard anoCar1 no40M22006000HoxD55.q 3400lastz3020004001 N/AN/A
X. tropicalis xenTro2 no40M22006000HoxD55.q 3400lastz3020004001 2009-05-273.176%
Stickleback gasAcu1 no5022006000HoxD55.q 3400lastz3004001 2009-05-141.916%
Fugu fr2 no5022006000HoxD55.q 3400lastz3004001 2009-05-201.702%
Zebrafish danRer5 no40M22006000HoxD55.q 3400lastz3020004001 2009-05-262.562%
Tetraodon tetNig1 no5022006000HoxD55.q 3400lastz3004001 2009-05-142.003%
Medaka oryLat2 no5022006000HoxD55.q 3400lastz3004001 2009-05-221.849%
Lamprey petMar1 no5022006000HoxD55.q 3400lastz3004001 2009-05-141.082%
Retrieved from "https://genomewiki.ucsc.edu/index.php?title=Hg19_conservation_lastz_parameters&oldid=7629"