Ce10 conservation lastz parameters

See Also

• C. elegans 9-way Ce10 Genome size statistics
• C. elegans 9-way Ce10 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(2000)	O(400)	T(1)	chain table date	% of ce10 matched (chainLink table)	% of query matched (chainLinkCe10)
C. briggsae cb4	no	50	3000	3000	default	9400	lastz	30	2000	400	1	2011-06-07	39.386%	36.190%
C. sp. 9 ju1422 caeSp91	no	50	3000	3000	default	9400	lastz	30	2000	400	1	2011-06-07	42.169%	36.281%
C. remanei caeRem4	no	50	3000	3000	default	9400	lastz	30	2000	400	1	2011-06-07	41.722%	33.467%
C. sp. 11 ju1373 caeSp111	no	50	3000	3000	default	9400	lastz	30	2000	400	1	2011-06-07	37.876%	47.371%
C. brenneri caePb3	no	50	3000	3000	default	9400	lastz	30	2000	400	1	2011-06-08	40.644%	32.339%
C. sp. 7 ju1286 caeSp71	no	50	3000	3000	default	9400	lastz	30	2000	400	1	2011-06-07	40.236%	35.479%
C. japonica caeJap4	no	50	3000	3000	default	9400	lastz	30	2000	400	1	2011-06-07	27.737%	19.557%
C. angaria caeAng1	no	50	3000	3000	default	9400	lastz	30	2000	400	1	2011-06-08	17.625%	23.396%