[MUMmer-help] Reg:Run-mummer3 .align file output

[yuva r. <yuv...@gm...>]

Dear colleague,

I used mummer tool and I found it to be amazing.

Lately,I have been using run-mummer3,I found some information that i need
to be missing.

I performed run-mummer3 for
Saccharomyces_cerevisiae.EF4.13.dna.chromosome.IV fasta sequence and I got
the attached .align file. In .align file for the first region (line no 73
in .align file) from residue no 88 to 898 ,alignment is there but for the
other regions such as regions in line no 75,79,82
,85,88,91,94,97,100,103,106,109 of the .align file,for those regions i want
to see the alignment.how can I get the alignment for these regions.

In specific, for example, for first region residue no (88-898) alignment,it
should start at 88 position but it is starting at 112 th residue..how can i
get whole alignment right from 88 to 898 th residue

Kindly help me in this regard...eagerly waiting for your kind reply.


pls find attachment



Thank you




YUVARAJ.I
Short Term Researcher
Indian Institute Of Science
Banglore.