OtoGar3 3-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

Bushbaby/otoGar3 3-way conservation alignment
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 otoGar3
matched
(chainLink table)
% of query
matched
(chainLinkOtoGar3)
Mouse lemur micMur3 no 254 3000 3000 default 9400 lastz-distrib-1.03.66/bin/lastz 30 2000 400 2 2018-02-01 69.178% 70.702%
Human hg38 no 254 3000 3000 default 9400 lastz-distrib-1.03.66/bin/lastz 30 2000 400 2 2015-02-23 64.899% 53.196%