Ce11 26-way conservation lastz parameters

See Also

• C. elegans 26-way Ce11 26-way Genome size statistics
• C. elegans 26-way Ce11 26-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:
A C G T A 91 -114 -31 -123 C -114 100 -125 -31 G -31 -125 100 -114 T -123 -31 -114 91 O=400 E=30		A C G T A 91 -90 -25 -100 C -90 100 -100 -25 G -25 -100 100 -90 T -100 -25 -90 91 O=400 E=30		A C G T A 90 -330 -236 -356 C -330 100 -318 -236 G -236 -318 100 -330 T -356 -236 -330 90 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 ce11 matched (chainLink table)	% of query matched (chainLinkCe11)
C. japonica caeJap4	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-06-25	27.709%	19.533%
C. brenneri caePb3	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-01	40.638%	32.296%
C. remanei caeRem4	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-02	41.715%	33.416%
C. tropicalis caeSp111	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-07	37.870%	47.362%
C. briggsae cb4	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-01	39.384%	36.204%
C. angaria caeAng2	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-06-30	17.682%	20.987%
C. sp. 5 ju800 caeSp51	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-09	40.332%	31.721%
H. bacteriophora/m31e hetBac1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-23	10.486%	13.556%
Microworm panRed1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-01	6.585%	10.359%
Threadworm strRat2	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-09	5.669%	11.848%
Pig roundworm ascSuu1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-23	5.722%	2.224%
Barber pole worm haeCon2	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-07	8.936%	3.405%
A. ceylanicum ancCey1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-23	9.736%	3.237%
N. americanus necAme1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-23	8.902%	4.115%
P. exspectatus priExs1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-23	6.222%	4.321%
P. pacificus priPac3	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-01	6.308%	4.534%
Pine wood nematode burXyl1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-09	6.291%	8.293%
Filarial worm bruMal2	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-08-11	5.065%	5.521%
M. hapla melHap1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-06-26	3.916%	6.840%
M. incognita melInc2	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-06-30	3.516%	5.539%
O. volvulus oncVol1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-08-10	5.193%	5.092%
Trichinella triSpi1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-23	2.848%	4.678%
Whipworm triSui1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-23	2.917%	3.714%
Dog heartworm dirImm1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-23	5.005%	5.474%
Eye worm loaLoa1	no	50	3000	3000	default	9400	lastz-distrib-1.03.66/bin/lastz	30	2000	400	1	2015-07-23	5.056%	5.274%