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shane-c-lawson / breseq

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3 low quality snps (false positives) rather than 1 quality deletion. change in call between versions #69

Open GoogleCodeExporter opened 8 years ago

GoogleCodeExporter commented 8 years ago 
What steps will reproduce the problem?

Run Breseq Version 0.16 on REL2057 and compare results to Version 0.23.

What is the expected output? What do you see instead?

In version 0.16 a 84 bp deletion is predicted starting at 474,258 junctions 
look very good as does the missing coverage evidence, but there is a small 
amount of contaminant reads. In version 0.23, a smaller (66) bp missing 
coverage evidence is predicted along with 2 predicted snps and a 3rd possible 
mixed read alignment evidence. None of the 3 read alignments look good (very 
few registers, and poor aligned bases on ends). 

This may be related to issue 68.

Please use labels and text to provide additional information.

Original issue reported on code.google.com by Daniel.D...@gmail.com on 26 Jun 2013 at 5:50