Mm39 35-way conservation lastz parameters
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See Also
- Mouse 35-way Mm39 35-way Genome size statistics
- Mouse 35-way Mm39 35-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 mm39 matched (chainLink table) |
% of query matched (chainLinkMm39) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Rat rn6 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-10-20 | 70.901% | 71.075% |
| Chinese hamster GCF_003668045.3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-12-08 | 58.000% | 65.829% |
| Beaver casCan1 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 36.600% | 40.919% |
| Squirrel speTri2 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-25 | 34.147% | 39.374% |
| Chinese pangolin manPen1 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 27.322% | 35.593% |
| Guinea pig cavPor3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-25 | 28.378% | 29.113% |
| Malayan flying lemur galVar1 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 35.714% | 36.152% |
| Marmoset calJac4 | no | 254 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-09-04 | 33.090% | 30.958% |
| Gorilla gorGor6 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 35.064% | 34.067% |
| Human hg38 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-08-18 | 35.372% | 31.072% |
| Bonobo panPan3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 35.282% | 33.905% |
| Chimp panTro6 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 35.291% | 31.035% |
| Tarsier tarSyr2 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-23 | 32.278% | 26.476% |
| Rhesus rheMac10 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-10-20 | 34.838% | 31.329% |
| Bushbaby otoGar3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 29.729% | 32.896% |
| Horse equCab3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 34.831% | 37.377% |
| Dolphin turTru2 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 30.188% | 33.447% |
| Dog canFam4 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 29.376% | 31.252% |
| Tree shrew tupBel1 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-25 | 19.691% | 25.089% |
| Pig susScr3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 25.611% | 29.405% |
| Elephant loxAfr3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 25.756% | 21.582% |
| Rabbit oryCun2 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 25.182% | 25.654% |
| Sheep oviAri4 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 26.200% | 26.350% |
| Hawaiian monk seal neoSch1 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 31.257% | 34.352% |
| Cow bosTau9 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-23 | 26.588% | 25.668% |
| Pika ochPri3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-25 | 18.559% | 24.585% |
| Hedgehog eriEur2 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 13.450% | 14.799% |
| Tenrec echTel2 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-25 | 14.456% | 14.589% |
| Shrew sorAra2 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-25 | 13.370% | 15.772% |
| Opossum monDom5 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-25 | 5.382% | 4.044% |
| X. tropicalis xenTro9 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-25 | 1.936% | 3.896% |
| Chicken galGal6 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-25 | 2.537% | 5.377% |
| Lamprey petMar3 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-24 | 0.905% | 2.170% |
| Zebrafish danRer11 | no | 0 | 3000 | 3000 | default | 9400 | lastz-distrib-1.04.03/bin/lastz | 30 | 2000 | 400 | 1 | 2020-11-25 | 1.416% | 2.801% |
