Hi
I have two mate pair libraries with 2-3 kb and 6-8 kb inserts from a plant species. The libraries have been sequenced 2x100 cycles. FastQC shows good quality reads with low duplication levels. I do not have a reference genome for the species. I wondering if there is an easy way to check the distance between paired reads to see how many of reads are from the expected fragments sizes.
I have two mate pair libraries with 2-3 kb and 6-8 kb inserts from a plant species. The libraries have been sequenced 2x100 cycles. FastQC shows good quality reads with low duplication levels. I do not have a reference genome for the species. I wondering if there is an easy way to check the distance between paired reads to see how many of reads are from the expected fragments sizes.
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