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Old 10-13-2011, 06:09 PM   #2
cedance
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Location: Germany

Join Date: Feb 2011
Posts: 108
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quality scale: phred64 (reads generated with GA pipeline version >= 1.3)
FAILED

Here lies the problem. Are you sure --solexa1.3-quals is right? Could you paste here a complete fastq read (header + read + quality)?
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