AnoCar2 conservation lastz parameters: Difference between revisions
From genomewiki
Jump to navigationJump to search
(initial contents) |
|||
| Line 2: | Line 2: | ||
<UL> | <UL> | ||
<LI>7-way [[AnoCar2 Genome size statistics]]</LI> | <LI>Lizard 7-way [[AnoCar2 Genome size statistics]]</LI> | ||
<LI>7-way [[AnoCar2 conservation alignment]]</LI> | <LI>Lizard 7-way [[AnoCar2 conservation alignment]]</LI> | ||
<LI>all other [[UCSC Multiple Alignments]]</LI> | <LI>all other [[UCSC Multiple Alignments]]</LI> | ||
</UL> | </UL> | ||
Latest revision as of 22:39, 18 May 2011
See Also
- Lizard 7-way AnoCar2 Genome size statistics
- Lizard 7-way AnoCar2 conservation alignment
- all other UCSC Multiple Alignments
| The default scoring matrix is: | The HoxD55 scoring matrix is: | The human-chimp.v2 scoring matrix is: | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
O=400 E=30 |
O=400 E=30 |
O=600 E=150 |
do not edit, automatically generated table
| query | abridged repeats(no) |
M(0) | K(3000) | L(3000) | Q | Y(9400) | program run | E(30) | H(0) | O(400) | T(1) | chain table date |
% of anoCar2 matched (chainLink table) |
% of query matched (chainLinkAnoCar2) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chicken galGal3 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz | 30 | 2000 | 400 | 1 | 2011-04-26 | 6.822% | N/A |
| Platypus ornAna1 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz | 30 | 2000 | 400 | 1 | 2011-04-27 | 4.561% | 4.093% |
| Human hg19 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz | 30 | 2000 | 400 | 1 | 2011-04-19 | 5.190% | N/A |
| Mouse mm9 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz | 30 | 2000 | 400 | 1 | 2011-04-26 | 4.981% | N/A |
| X. tropicalis xenTro2 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz | 30 | 2000 | 400 | 1 | 2011-04-25 | 5.053% | 6.763% |
| Stickleback gasAcu1 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz | 30 | 2000 | 400 | 1 | 2011-04-26 | 3.143% | 12.536% |
