Ce10 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 ce10
matched
(chainLink table)
% of query
matched
(chainLinkCe10)
C. briggsae cb4 no5030002200default 9400lastz3020004001 2011-06-0739.386% 36.190%
C. sp. 9 ju1422 caeSp91 no5030002200default 9400lastz3020004001 2011-06-0742.169% 36.281%
C. remanei caeRem4 no5030002200default 9400lastz3020004001 2011-06-0741.722% 33.467%
C. sp. 11 ju1373 caeSp111 no5030002200default 9400lastz3020004001 2011-06-0737.876% 47.371%
C. brenneri caePb3 no5030002200default 9400lastz3020004001 2011-06-0840.644% 32.339%
C. sp. 7 ju1286 caeSp71 no5030002200default 9400lastz3020004001 2011-06-0740.236% 35.479%
C. japonica caeJap4 no5030002200default 9400lastz3020004001 2011-06-0727.737% 19.557%
C. angaria caeAng1 no5030002200default 9400lastz3020004001 2011-06-0817.625% 23.396%