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Table 1 Correlation between PIDs and structural similarity score. Z: Z-Score, (Also known as SD – Score) from randomisation.

From: Quantification of the variation in percentage identity for protein sequence alignments

Alignment

Weight Matrix

gap pen

PID1

PID2

PID3

PID4

Z

NAS

STAMP

  

0.85

0.82

0.84

0.86

  

AMPS

BLOSUM62

10

0.79

0.76

0.77

0.80

0.84

0.82

  1. NAS: Normalised Alignment Score, (see text for details).