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. 2008 Oct 29;25(1):61–67. doi: 10.1093/bioinformatics/btn561

Table 3.

Emission probability

Emission probability Hidden states
LOSS RET
Observation states S1 (1-e1)(1-e2)(1-h) +e1(1-e2)h (1-e1)(1-e2)(1-h)+e1e2h
S2 (1-e1)(1-e2)h +e1(1-e2)(1-h) (1-e1)e2h+e1(1-e2)(1-h)
S3 (1-e1)e2h+e1e2(1-h) (1-e1)(1-e2)h+e1e2(1-h)
S4 (1-e1)e2(1-h)+e1e2h (1-e1)e2(1-h)+e1(1-e2)h
S5 (1-e1)(1-h)+e1h (1-e1)(1-h)+e1h
S6 (1-e1)h+e1(1-h) (1-e1)h+e1(1-h)
S7 (1-e2) (1-e2)(1-h)+e2h
S8 e2 (1-e2)h+e2(1-h)
S9 1 1