Dear All,
I studied a whole exome with Truseq DNA Exome (2x75 and suitable High output kit) on NextSeq 500.. AFter sequencing I got around 46 million reads per sample and 42 million of these were mapped as globally.
As you guess I did BamQC report and got that only 11 Milllion of these 46 million reads are mapped to the targets of TruSeq DNA Exome kit. And I have used the bed file provided by Illumina for this kit.
So what could be the possible problem that On global Nearly 90% of my reads are mapped but in target only around 23% of the reads are mapped?
Thanks in advance
I studied a whole exome with Truseq DNA Exome (2x75 and suitable High output kit) on NextSeq 500.. AFter sequencing I got around 46 million reads per sample and 42 million of these were mapped as globally.
As you guess I did BamQC report and got that only 11 Milllion of these 46 million reads are mapped to the targets of TruSeq DNA Exome kit. And I have used the bed file provided by Illumina for this kit.
So what could be the possible problem that On global Nearly 90% of my reads are mapped but in target only around 23% of the reads are mapped?
Thanks in advance
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