Dm6 27-way conservation lastz parameters

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See Also


The default
scoring matrix is:
  The HoxD55
scoring matrix is:
 The human-chimp.v2
scoring matrix is:
 ACGT
A91-114-31-123
C-114100-125-31
G-31-125100-114
T-123-31-11491

O=400 E=30

 
 ACGT
A91-90-25-100
C-90100-100-25
G-25-100100-90
T-100-25-9091

O=400 E=30

 
 ACGT
A90-330-236-356
C-330100-318-236
G-236-318100-330
T-356-236-33090

O=600 E=150

do not edit, automatically generated table

query abridged
repeats(no)
M(0)K(3000) L(3000)QY(9400) program
run
E(30)H(0) O(400)T(1) chain table
date
% of dm6
matched
(chainLink table)
% of query
matched
(chainLinkDm6)
D. sechellia droSec1 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2982.561% 81.572%
D. simulans droSim1 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2980.042% 89.329%
D. erecta droEre2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2980.023% 84.386%
D. yakuba droYak3 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2980.562% 80.965%
D. biarmipes droBia2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2975.042% 67.383%
D. suzukii droSuz1 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2974.591% 64.198%
D. ananassae droAna3 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2967.282% 58.760%
D. bipectinata droBip2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2965.865% 60.253%
D. eugracilis droEug2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2975.265% 73.292%
D. elegans droEle2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2975.445% 67.566%
D. kikkawai droKik2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2970.590% 64.708%
D. takahashii droTak2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2975.507% 63.519%
D. rhopaloa droRho2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2974.940% 65.415%
D. ficusphila droFic2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2974.740% 74.403%
D. miranda droMir2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2959.308% 63.646%
D. willistoni droWil2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2951.432% 40.432%
D. persimilis droPer1 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2959.049% 52.949%
D. pseudoobscura droPse3 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2959.836% 59.839%
D. grimshawi droGri2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2950.979% 42.814%
M. domestica musDom2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2919.278% 4.861%
A. gambiae anoGam1 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2914.452% 7.962%
D. albomicans droAlb1 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2944.544% 38.217%
A. mellifera apiMel4 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-298.183% 5.360%
D. mojavensis droMoj3 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2950.132% 41.385%
D. virilis droVir3 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2951.937% 43.828%
T. castaneum triCas2 no022004000HoxD55.q 3400lastz-distrib-1.03.52/bin/lastz3020004001 2014-08-2914.092% 14.808%