Improved hit criteria for DNA local alignment

BMC Bioinformatics

Table 2 Markov Model Hit probability of seeds on a Markov model of order 5 trained on a large mixed sample of cross-species alignments

weight	spaced seed	hit proba	transition-constrained seed	hit proba
9	M₉ = ##_##_##_###	0.822	M₉^tr= ##@##_##@##	0.845
10	M₁₀ = ##_##_##___##_##	0.716	M₁₀^tr= #@@##_##_##@#@	0.746
11	M₁₁ = ##_##_##_##_###	0.603	M₁₁^tr= ##@##_##_##@##	0.632

ISSN: 1471-2105