Richard Mott's Home Page

Group Home Page

Sequence Alignment with monotonic gap penalties

Introduction

ariadne

prospero

file formats

installation

output

statistics

bugs

legal matters

Wellcome Trust Centre for Human Genetics

OUTPUT

ariadne prints out statistically significant alignments in the order that it finds them. Each alignment is preceeded by a one-line summary, e.g.

   > 0 d1bal__ len 51 from 14 to 49  vs  d2pdd__ len 43 from 5 to 40   score 77  
   eval 6.954146e-10 identity 36.11% K 1.361261e-01 L 3.478619e-01 H 1.187679e+00 alpha 8.223475e-02

   14 PAIRRLLAEHNLDASAIKGTGVGGRLTREDVEKHLA    49  d1bal__
      |::|:   |  :|   ::|||  ||: :||::  ||
    5 PSVRKYAREKGVDIRLVQGTGKNGRVLKEDIDAFLA    40  d2pdd__

The one-line summary says that the comparison between d1bal__ (51 residues) and d2pdd__ (43 residues) scored 77 with an e-value of 6.954e-10 and a percentage identity 36%. The parameters used for assessing significance, K, L, H, alpha took the values 0.136, 0.347, 1.187, 0.082. [H, alpha are ony printed for information].

Profile-Sequence alignments look the same as Sequence-Sequence alignments, with the profile consensus printed.

Please send Questions, Comments, and Bug Reports to Richard Mott