So the Miseq fastq header for pair-end data has changed. I used to see a /1 or /2 at the end of the read name. Now I get something like this for the first read:
@HWI:1:X:2:1101:1094:2143 1:N:0: CGGCTATG-ATAGAGGC
and this for the second read:
@HWI:1:X:2:1101:1094:2143 4:N:0: CGGCTATG-ATAGAGGC
I've seen the the number 3 or 4 in the second read but not sure what they mean, and haven't seen an explanation anywhere. Does anyone know what this number signifies?
@HWI:1:X:2:1101:1094:2143 1:N:0: CGGCTATG-ATAGAGGC
and this for the second read:
@HWI:1:X:2:1101:1094:2143 4:N:0: CGGCTATG-ATAGAGGC
I've seen the the number 3 or 4 in the second read but not sure what they mean, and haven't seen an explanation anywhere. Does anyone know what this number signifies?
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