Table 17

Score selection. Wm (Wms) is the score for matching (mismatching) bases. Other notations are given in the text.
Alignment A
 Alignment B
 Conditions
a consensus intron and no indels
 a non-consensus intron and no indels
 <a onClick="popup('http://www.biology-direct.com/content/3/1/20/mathml/M15','MathML',630,470);return false;" target="_blank" href="http://www.biology-direct.com/content/3/1/20/mathml/M15">View MathML</a>
a consensus intron and an indel
 a non-consensus intron and no indels
 <a onClick="popup('http://www.biology-direct.com/content/3/1/20/mathml/M16','MathML',630,470);return false;" target="_blank" href="http://www.biology-direct.com/content/3/1/20/mathml/M16">View MathML</a>
two consensus introns and no indels
 a non-consensus intron and no indels
 <a onClick="popup('http://www.biology-direct.com/content/3/1/20/mathml/M17','MathML',630,470);return false;" target="_blank" href="http://www.biology-direct.com/content/3/1/20/mathml/M17">View MathML</a>
a consensus intron and no indels
 two consensus introns and no indels
 <a onClick="popup('http://www.biology-direct.com/content/3/1/20/mathml/M18','MathML',630,470);return false;" target="_blank" href="http://www.biology-direct.com/content/3/1/20/mathml/M18">View MathML</a>
two consensus introns and no indels
 a non-consensus intron and an indel
 <a onClick="popup('http://www.biology-direct.com/content/3/1/20/mathml/M19','MathML',630,470);return false;" target="_blank" href="http://www.biology-direct.com/content/3/1/20/mathml/M19">View MathML</a>
a consensus intron and no indels
 two consensus introns and an indel
 <a onClick="popup('http://www.biology-direct.com/content/3/1/20/mathml/M20','MathML',630,470);return false;" target="_blank" href="http://www.biology-direct.com/content/3/1/20/mathml/M20">View MathML</a>

Kapustin et al. Biology Direct 2008 3:20   doi:10.1186/1745-6150-3-20

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