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Old 06-08-2009, 06:12 AM   #1
Layla
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Location: London

Join Date: Sep 2008
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Default capital and lower case bases

Does anyone know why reads from a paired end solexa run that are aligned using ./maq map are mixed upper and lower case letters in the resulting.txt alignment file? eg:

GggTTAgGGTTAGGgTTaGGGGTTAGGGGTTAGGGgTTAGGGTTg



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L
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