Improvement in accuracy of multiple sequence alignment using novel group-to-group sequence alignment algorithm with piecewise linear gap cost

Table 4 Average column scores of full length set

	Ref. 1.1	Ref. 1.2	Ref. 2	Ref. 3	Ref. 4	Ref. 5	Overall	Ranksum
PEIME_piecewise	0.416	0.839	0.445	0.566	0.573	0.552	0.572	846
PRIME_affine	0.391	0.826	0.413	0.539	0.483	0.496	0.531	958
Prrn	0.334	0.791	0.406	0.469	0.491	0.411	0.499	1080
MAFFT	0.449	0.839	0.436	0.560	0.607	0.544	0.583	759
ProbCons	0.401	0.851	0.374	0.462	0.530	0.509	0.532	847
T-Coffee	0.324	0.832	0.384	0.459	0.563	0.534	0.525	1017
MUSCLE	0.313	0.795	0.343	0.380	0.460	0.408	0.465	1246
DIALIGN-T	0.246	0.723	0.290	0.347	0.462	0.389	0.423	1554
POA	0.224	0.678	0.265	0.343	0.413	0.323	0.389	1690
ClustalW	0.221	0.707	0.219	0.271	0.404	0.237	0.368	1497

Each column shows average column scores using all alignments of each reference of the full length set. Overall and Ranksum columns show the average column scores and the rank sum of the Friedman test using all alignment of the whole full length set, respectively. A smaller rank sum means better accuracy.

ISSN: 1471-2105