From: Jim Procter Date: Thu, 26 Oct 2017 10:40:25 +0000 (+0100) Subject: JAL-2685 tidy up html doc X-Git-Tag: Release_2_10_3b1~64 X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=2a33b8a1423861f21081cfc7edb1794c6da8b751;p=jalview.git JAL-2685 tidy up html doc --- diff --git a/help/html/calculations/pairwise.html b/help/html/calculations/pairwise.html index bf677e6..1090253 100755 --- a/help/html/calculations/pairwise.html +++ b/help/html/calculations/pairwise.html @@ -38,15 +38,21 @@

Gap open : 12
Gap extend : 2

-

When you select the pairwise alignment option, a new window will - come up which displays the alignments in a text format, for example:

-

-

-    FER1_SPIOL/5-13 TTMMGMAT
- |. .. ||
+

When you select the pairwise alignment option, a new window + will come up which displays the alignments in a text format, for + example:

+

+

+    FER1_SPIOL/5-13 TTMMGMAT
+ |. .. ||
FER1_MESCR/5-15 TAALSGAT -
shows the aligned sequences, where '|' links identical residues, and (for peptide) '.' links residues that have a positive PAM250 score. -

The window also shows information about the alignment such as alignment score, length and percentage identity between the sequences.

-

A button is also provided to allow you to view the sequences as an alignment.

+
+ shows the aligned sequences, where '|' links identical residues, and + (for peptide) '.' links residues that have a positive PAM250 score. +

The window also shows information about the alignment such as + alignment score, length and percentage identity between the + sequences.

+

A button is also provided to allow you to view the sequences as + an alignment.