Fr3 conservation lastz parameters: Difference between revisions
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<TD>no</TD><TD>50</TD><TD>3000</TD><TD>3000</TD><TD>HoxD55.q</TD> | <TD>no</TD><TD>50</TD><TD>3000</TD><TD>3000</TD><TD>HoxD55.q</TD> | ||
<TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD> | <TD>9400</TD><TD>lastz</TD><TD>30</TD><TD>2000</TD><TD>400</TD><TD>1</TD> | ||
<TD> | <TD>2011-12-02</TD><TD ALIGN=RIGHT>55.527%</TD> | ||
<TD ALIGN=RIGHT> | <TD ALIGN=RIGHT>48.038%</TD></TR> | ||
<TR> | <TR> | ||
<TH>Medaka oryLat2</TH> | <TH>Medaka oryLat2</TH> | ||
Revision as of 18:04, 6 December 2011
See Also
- Fugu 6-way Fr3 Genome size statistics
- Fugu 6-way Fr3 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 fr3 matched (chainLink table) |
% of query matched (chainLinkFr3) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Tetraodon tetNig2 | no | 50 | 3000 | 3000 | HoxD55.q | 9400 | lastz | 30 | 2000 | 400 | 1 | 2011-12-01 | 70.912% | 80.674% |
| Nile tilapia oreNil1 | no | 50 | 3000 | 3000 | HoxD55.q | 9400 | lastz | 30 | 2000 | 400 | 1 | 2011-12-02 | 57.240% | 30.736% |
| Stickleback gasAcu1 | no | 50 | 3000 | 3000 | HoxD55.q | 9400 | lastz | 30 | 2000 | 400 | 1 | 2011-12-02 | 55.527% | 48.038% |
| Medaka oryLat2 | no | 50 | 3000 | 3000 | HoxD55.q | 9400 | lastz | 30 | 2000 | 400 | 1 | 2011-12-02 | 43.863% | 25.905% |
| Zebrafish danRer7 | no | 50 | 3000 | 3000 | HoxD55.q | 9400 | lastz | 30 | 2000 | 400 | 1 | 2011-12-02 | 22.823% | 7.365% |
