Hg19 conservation lastz parameters: Difference between revisions
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</TR><TR> | </TR><TR> | ||
<TH>Orangutan ponAbe2</TH> | <TH>Orangutan ponAbe2</TH> | ||
<TD | <TD>no</TD><TD>254</TD><TD>4500</TD><TD>3000</TD><TD>human_chimp.v2.q</TD> | ||
<TD>15000</TD><TD>lastz</TD><TD>150</TD><TD>0</TD><TD>600</TD><TD>2</TD> | |||
<TD>2009-05-14</TD><TD ALIGN=RIGHT>91.350%</TD> | |||
</TR><TR> | </TR><TR> | ||
<TH>Rhesus rheMac2</TH> | <TH>Rhesus rheMac2</TH> | ||
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<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> | <TD>2009-05-13</TD><TD ALIGN=RIGHT>35.299%</TD> | ||
</TR><TR> | </TR><TR> | ||
<TH>Rat rn4</TH> | <TH>Rat rn4</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> | <TD>2009-05-13</TD><TD ALIGN=RIGHT>32.879%</TD> | ||
</TR><TR> | </TR><TR> | ||
<TH>Squirrel speTri1</TH> | <TH>Squirrel speTri1</TH> | ||
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</TR><TR> | </TR><TR> | ||
<TH>Cat felCat3</TH> | <TH>Cat felCat3</TH> | ||
<TD | <TD>no</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>in progress</TD><TD ALIGN=RIGHT>N/A</TD> | |||
</TR><TR> | </TR><TR> | ||
<TH>Dog canFam2</TH> | <TH>Dog canFam2</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- | <TD>2009-05-14</TD><TD ALIGN=RIGHT>52.879%</TD> | ||
</TR><TR> | </TR><TR> | ||
<TH>Horse equCab2</TH> | <TH>Horse equCab2</TH> | ||
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<TD>yes</TD><TD>40M</TD><TD>2200</TD><TD>10000</TD><TD>HoxD55.q</TD> | <TD>yes</TD><TD>40M</TD><TD>2200</TD><TD>10000</TD><TD>HoxD55.q</TD> | ||
<TD>3400</TD><TD>lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD> | <TD>3400</TD><TD>lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD> | ||
<TD> | <TD>2009-05-14</TD><TD ALIGN=RIGHT>in progress</TD> | ||
</TR><TR> | </TR><TR> | ||
<TH>Zebra finch taeGut1</TH> | <TH>Zebra finch taeGut1</TH> | ||
Revision as of 16:26, 14 May 2009
See Also:
- Hg19 Genome size statistics
- Hg19 conservation alignment
- Hg18 44way blastz parameters
- Hg18 Genome size statistics
- Hg18 44way alignment
do not edit, automatically generated table
| query | abridged repeats(no) |
M(40M) | K(3000) | L(3000) | Q | Y(9400) | program run | E(30) | H(0) | O(400) | T(1) | chain table date |
% of hg19 matched (chainLink table) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chimp panTro2 | no | 254 | 4500 | 3000 | human_chimp.v2.q | 15000 | lastz | 150 | 0 | 600 | 2 | 2009-03-20 | 94.846% |
| Gorilla gorGor1 | no | 254 | 4500 | 3000 | human_chimp.v2.q | 15000 | lastz | 150 | 0 | 600 | 2 | 2009-03-22 | 59.484% |
| Orangutan ponAbe2 | no | 254 | 4500 | 3000 | human_chimp.v2.q | 15000 | lastz | 150 | 0 | 600 | 2 | 2009-05-14 | 91.350% |
| Rhesus rheMac2 | no | 254 | 4500 | 3000 | human_chimp.v2.q | 15000 | lastz | 150 | 0 | 600 | 2 | in progress | in progress |
| Baboon papHam1 | TBD | ||||||||||||
| Marmoset calJac1 | TBD | ||||||||||||
| Bushbaby otoGar1 | TBD | ||||||||||||
| Mouse lemur micMur1 | TBD | ||||||||||||
| TreeShrew tupBel1 | TBD | ||||||||||||
| Shrew sorAra1 | TBD | ||||||||||||
| Mouse mm9 | yes | 40M | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2009-05-13 | 35.299% |
| Rat rn4 | yes | 40M | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2009-05-13 | 32.879% |
| Squirrel speTri1 | TBD | ||||||||||||
| Guinea Pig cavPor3 | TBD | ||||||||||||
| Rabbit oryCun1 | TBD | ||||||||||||
| Pika ochPri2 | TBD | ||||||||||||
| Hedgehog eriEur1 | TBD | ||||||||||||
| Cat felCat3 | no | 40M | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | in progress | N/A |
| Dog canFam2 | yes | 40M | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2009-05-14 | 52.879% |
| Horse equCab2 | TBD | ||||||||||||
| Alpaca vicPac1 | TBD | ||||||||||||
| Megabat pteVam1 | TBD | ||||||||||||
| Microbat myoLuc1 | TBD | ||||||||||||
| Dolphin turTru1 | TBD | ||||||||||||
| Cow bosTau4 | TBD | ||||||||||||
| Sloth choHof1 | TBD | ||||||||||||
| Tarsier tarSyr1 | TBD | ||||||||||||
| Kangaroo rat dipOrd1 | TBD | ||||||||||||
| Rock hyrax proCap1 | TBD | ||||||||||||
| Wallaby macEug1 | TBD | ||||||||||||
| Armadillo dasNov1 | TBD | ||||||||||||
| Tenrec echTel1 | TBD | ||||||||||||
| Elephant loxAfr2 | TBD | ||||||||||||
| Armadillo dasNov2 | TBD | ||||||||||||
| Opossum monDom5 | TBD | ||||||||||||
| Platypus ornAna1 | TBD | ||||||||||||
| Chicken galGal3 | yes | 40M | 2200 | 10000 | HoxD55.q | 3400 | lastz | 30 | 2000 | 400 | 1 | 2009-05-14 | in progress |
| Zebra finch taeGut1 | TBD | ||||||||||||
| Lizard anoCar1 | TBD | ||||||||||||
| X. tropicalis xenTro2 | TBD | ||||||||||||
| Zebrafish danRer5 | TBD | ||||||||||||
| Tetraodon tetNig1 | TBD | ||||||||||||
| Fugu fr2 | TBD | ||||||||||||
| Stickleback gasAcu1 | TBD | ||||||||||||
| Medaka oryLat2 | TBD | ||||||||||||
| Lamprey petMar1 | TBD | ||||||||||||
