Rn6 20-way conservation lastz parameters
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See Also
- Rat 20-way Rn6 20-way Genome size statistics
- Rat 20-way Rn6 20-way 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 rn6 matched (chainLink table) |
% of query matched (chainLinkRn6) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Mouse mm10 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2016-04-08 | 71.015% | 70.886% |
| Prairie vole micOch1 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-18 | 57.205% | 70.134% |
| Guinea pig cavPor3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-13 | 27.834% | 28.362% |
| Human hg38 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.54/bin/lastz | 30 | 2000 | 400 | 1 | 2015-02-17 | 34.899% | 31.077% |
| Chimp panTro5 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-13 | 40.816% | 35.356% |
| Tarsier tarSyr2 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-18 | 38.509% | 32.607% |
| Rhesus rheMac8 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-14 | 40.165% | 33.468% |
| Dog canFam3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-13 | 28.540% | 30.864% |
| Rabbit oryCun2 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-17 | 24.654% | 24.981% |
| Cat felCat8 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-17 | 29.520% | 29.673% |
| Panda ailMel1 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-16 | 30.404% | 34.777% |
| Cow bosTau8 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-16 | 25.902% | 25.355% |
| Opossum monDom5 | no | 254 | 2200 | 6000 | HoxD55.q | 3400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-13 | 9.652% | 7.191% |
| Platypus ornAna2 | no | 254 | 2200 | 6000 | HoxD55.q | 3400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-18 | 6.389% | 8.652% |
| X. tropicalis xenTro7 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-12 | 4.104% | 7.913% |
| Chicken galGal5 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2016-05-03 | 3.983% | 7.853% |
| Turkey melGal5 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-17 | 2.440% | 4.910% |
| Elephant shark calMil1 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2017-01-18 | 1.664% | 4.309% |
| Zebrafish danRer10 | no | 0 | 2200 | 6000 | HoxD55.q | 3400 | lastz-distrib-1.03.66/bin/lastz | 30 | 2000 | 400 | 1 | 2015-09-18 | 3.232% | 5.815% |
