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Table 2 Relative accuracy properties of the best gap costs

From: Logarithmic gap costs decrease alignment accuracy

 

Relative Identities

 

Log-Affine

Affine

Logarithmic

Minimum

0.710

0.501

0.193

1st Quartile

0.993

0.971

0.549

Mean

0.992

0.973

0.717

Median

1.0

0.993

0.745

3rd Quartile

1.0

1.0

0.892

Maximum

1.0

1.0

1.0

  1. Relative accuracy was calculated as the alignment identity produced by a gap cost for each sequence pair divided by the largest alignment identity produced by any gap cost for the same sequence pair. See notes of Table 1.
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BMC Bioinformatics

ISSN: 1471-2105

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