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Old 01-04-2014, 04:48 PM   #1
MissDona
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Default stange kmer content

hi all,
I've got this fastqc report with high ttttt all along the 1st group of paired-end reads, and high aaaaa &&. I TTTTT all along the 2nd group of paired-end reads. is it normal? thanks alot!
(nimblegen 70M exome sequencing data, PE reads, 90bp lengh)
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Last edited by MissDona; 01-04-2014 at 04:55 PM.
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Old 01-04-2014, 04:58 PM   #2
MissDona
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as attached, thanks!
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Old 01-05-2014, 07:31 AM   #3
GenoMax
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There is no signal for "C". That is odd. Are all your samples showing this pattern? Were they sequenced on the same flowcell? Have you checked with your sequence provider that there was nothing technically wrong with this run?
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Old 01-08-2014, 07:27 AM   #4
barkasn
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This is very odd. If you can't trace the cause, consider clipping your reads.
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