[Bioperl-l] parsing output from an avid alignment

[Jonathan Manning]

Hi all,

I'm preparing to incorporate Vista analysis into my script, and am
attempting to use the AVID global alignment algorithm, since they seem
to be associated, and likely to work well together. 

I don't think there is, but just in case I've missed something, has
anyone written a module to parse the AVID output? Apparently it's a
hybrid of the fasta and ClustalW styles. Here's an excerpt of the kind
of thing I mean:

1419  t   |
1420  c   |
1421  a   |
1422  a   |
1423  t   |
1424  a   |
1425  g   |
1426  g   |
1427  t   |
1428  g - g  9
1429  a - a  10
1430  c - c  11
1431  t - t  12
1432  a   g  13
1433  a - a  14
1434  a - a  15
1435  a   g  16
1436  g - g  17
1437  t   |
1438  c   |
1439  t   |
1440  c   |
1441  t   |
1442  a   |
1443  a   |
1444  a   |
1445  g   |

Cheers,

Jon