Emboss Needle() Warning: “Sequence Character Not Found In Ajseqcvtks” …?
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10.6 years ago
a1ultima ▴ 840

I am using EMBOSSwin's needle() command line function which performs pairwise global alignments, but I encounter a strange warning.

So I have 24 pairs of amino acid sequences that need aligning, I run the needle() command from python using "subprocess.call()" - whilst this process occurs (seemingly smoothly) I get the following warning:

Warning: Sequence character string not found in ajSeqCvtKS

Can anybody explain what this means?

I must make it clear: this question has been asked outside of BioStar in an email: http://www.mail-archive.com/emboss@lists.open-bio.org/msg01959.html

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