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Old 11-20-2014, 10:02 PM   #1
luc
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Default PhiX libraries A/T composition

The A bias of PhiX forward reads (please see the attachment) has made me curious about the libraries. Would anybody have an idea how these are generated by Illumina?

PhiX has a single-stranded DNA genome with is enriched for As (1684 As, 1291 Ts, 1254 Gs, 1157 Cs).
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Old 11-21-2014, 07:05 PM   #2
Brian Bushnell
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I suppose an unamplified library of a single-stranded organism will strongly reflect the organism's own composition bias. So, perhaps it is unamplified? That's probably not a very good decision for something used for calibration, but I'm just speculating.
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Old 12-03-2014, 07:12 AM   #3
Martin_Ranik
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looks like the phiX library is directional, which is interesting. Could be that the orignal material used to make the lib was ssDNA and the library was made using a strand-specific protocol...
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