Hg18 44way blastz parameters: Difference between revisions
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== | ==see also== | ||
<UL> | <UL> | ||
<LI>[[Genome size statistics|Hg18 Genome size statistics]]</LI> | <LI>Human 44-way [[Genome size statistics|Hg18 Genome size statistics]]</LI> | ||
<LI>[[Hg18 44way alignment | <LI>Human 44-way [[Hg18 44way alignment|Hg18 conservation alignment]]</LI> | ||
<LI>all other [[UCSC Multiple Alignments]]</LI> | |||
<LI>[[ | |||
</UL> | </UL> | ||
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</TR> | </TR> | ||
</TABLE> | </TABLE> | ||
[[Category:Comparative Genomics]] | |||
Latest revision as of 22:46, 18 May 2011
see also
- Human 44-way Hg18 Genome size statistics
- Human 44-way Hg18 conservation alignment
- all other UCSC Multiple Alignments
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 hg18 matched (chainLink table) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chimp panTro2 | no | 40M | 4500 | 3000 | human_chimp.v2.q | 15000 | blastz.v7 | 150 | 0 | 600 | 2 | 2006-07-15 | 94.888% |
| Gorilla gorGor1 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-11-05 | 61.731% |
| Orangutan ponAbe2 | no | 50 | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 1 | 2007-10-03 | 92.892% |
| Rhesus rheMac2 | no | 40M | 3000 | 3000 | default | 9400 | blastz.v7 | 30 | 0 | 400 | 1 | 2006-03-17 | 85.552% |
| Marmoset calJac1 | no | 50 | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 1 | 2007-11-13 | 78.351% |
| Tarsier tarSyr1 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-10-27 | 47.999% |
| Bushbaby otoGar1 | no | 40M | 3000 | 3000 | default | 9400 | blastz.v7 | 30 | 0 | 400 | 1 | 2007-02-27 | 44.638% |
| Mouse lemur micMur1 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 2 | 2008-08-04 | 46.445% |
| TreeShrew tupBel1 | no | 40M | 3000 | 3000 | default | 9400 | blastz.v7 | 30 | 0 | 400 | 1 | 2006-12-20 | 37.348% |
| Mouse mm9 | yes | 40M | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 1 | 2007-08-14 | 35.201% |
| Rat rn4 | yes | 40M | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 1 | 2006-02-17 | 32.893% |
| Kangaroo rat dipOrd1 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-10-22 | 27.282% |
| Guinea Pig cavPor3 | no | 50 | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 1 | 2008-04-11 | 43.971% |
| Squirrel speTri1 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-08-05 | 35.828% |
| Rabbit oryCun1 | no | 40M | 3000 | 3000 | default | 9400 | blastz.v7 | 30 | 0 | 400 | 1 | 2007-04-17 | 34.015% |
| Pika ochPri2 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-07-30 | 27.974% |
| Shrew sorAra1 | no | 50 | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 1 | 2007-03-10 | 20.056% |
| hedgehog eriEur1 | no | 50 | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 1 | 2007-03-11 | 19.622% |
| Cat felCat3 | no | 50 | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 1 | 2006-11-10 | 35.888% |
| Dog canFam2 | yes | 40M | 3000 | 3000 | default | 9400 | blastz.v7 | 30 | 0 | 400 | 1 | 2005-12-29 | 52.915% |
| Horse equCab2 | no | 50 | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 1 | 2008-04-11 | 57.162% |
| Megabat pteVam1 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-10-22 | 45.502% |
| Microbat myoLuc1 | no | 50 | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 2 | 2008-08-02 | 33.044% |
| Dolphin turTru1 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-10-22 | 48.537% |
| Cow bosTau4 | no | 50 | 3000 | 3000 | default | 9400 | blastz | 30 | 0 | 400 | 1 | 2008-03-11 | 46.689% |
| Alpaca vicPac1 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-10-28 | 39.531% |
| Armadillo dasNov2 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-10-27 | 33.663% |
| Sloth choHof1 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-10-24 | 34.463% |
| Tenrec echTel1 | no | 40M | 3000 | 3000 | default | 9400 | blastz.v7 | 30 | 0 | 400 | 1 | 2007-04-17 | 23.645% |
| Elephant loxAfr2 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-10-27 | 35.204% |
| Rock hyrax proCap1 | no | 50 | 3000 | 3000 | default | 9400 | lastz | 30 | 0 | 400 | 1 | 2008-10-24 | 30.935% |
| Opossum monDom4 | no | 50 | 2200 | 10000 | HoxD55.q | 3400 | blastz.v7 | 30 | 2000 | 400 | 1 | 2006-02-13 | 12.385% |
| Platypus ornAna1 | no | 50 | 2200 | 6000 | HoxD55.q | 3400 | blastz | 30 | 2000 | 400 | 1 | 2007-04-04 | 7.870% |
| Chicken galGal3 | yes | 40M | 2200 | 10000 | HoxD55.q | 3400 | blastz.v7 | 30 | 2000 | 400 | 1 | 2006-05-23 | 3.589% |
| Zebra finch taeGut1 | no | 50 | 2200 | 10000 | HoxD55.q | 3400 | blastz | 30 | 2000 | 400 | 1 | 2008-09-09 | 3.503% |
| Lizard anoCar1 | no | 40M | 2200 | 6000 | HoxD55.q | 3400 | blastz | 30 | 2000 | 400 | 1 | 2007-02-18 | 4.774% |
| X. tropicalis xenTro2 | no | 40M | 2200 | 8000 | HoxD55.q | 3400 | blastz.v7 | 30 | 2000 | 400 | 1 | 2006-04-20 | 2.623% |
| Zebrafish danRer5 | no | 50 | 2200 | 6000 | HoxD55.q | 3400 | blastz | 30 | 0 | 400 | 1 | 2007-10-17 | 2.565% |
| Tetraodon tetNig1 | no | 40M | 2200 | 6000 | HoxD55.q | 3400 | blastz.v7 | 30 | 2000 | 400 | 1 | 2006-01-07 | 2.001% |
| Fugu fr2 | no | 50 | 2200 | 6000 | HoxD55.q | 3400 | blastz | 30 | 2000 | 400 | 1 | 2007-01-24 | 1.766% |
| Stickleback gasAcu1 | no | 50 | 2200 | 6000 | HoxD55.q | 3400 | blastz | 30 | 2000 | 400 | 1 | 2007-02-08 | 1.923% |
| Medaka oryLat2 | no | 50 | 2200 | 6000 | HoxD55.q | 3400 | lastz | 30 | 0 | 400 | 1 | 2008-08-19 | 1.829% |
| Lamprey petMar1 | no | 50 | 2200 | 6000 | HoxD55.q | 3400 | blastz | 30 | 0 | 400 | 1 | 2008-01-29 | 1.251% |
