Accelerated probabilistic inference of RNA structure evolution

BMC Bioinformatics

Table 4 The Stemloc grammar, part 3 pf 3: emissions.

L	→	(L → R)
^xyLoopMatch	→	baseSubstitution [A, B]
^yLoopIns	→	baseIndel [B]
^xLoopDel	→	baseIndel [A]
^xyLBulgeMatch	→	baseSubstitution [A, B]
^yLBulgeIns	→	baseIndel [B]
^xLBulgeDel	→	baseIndel [A]
^xyRBulgeMatch	→	baseSubstitution [C, D]
^yRbulgeIns	→	baseIndel [D]
^xRBulgeDel	→	baseIndel [C]
^xyLRBulgeMatch	→	baseSubstitution [A, B]
^yLRBulgeIns	→	baseIndel [B]
^xLRBulgeDel	→	baseIndel [A]
^xyStemMatch	→	basepairSubstitution [AC, BD]
^yStemIns	→	basepairIndel [BD]
^xStemDel	→	basepairIndel [AC]

ISSN: 1471-2105