My miRNA fastq files read as follows:
;>SRR1658346.1 HISEQ1:187:D0NWFACXX:3:1101:2565:2050 length=51
>SRR1658346.2 HISEQ1:187:D0NWFACXX:3:1101:2654:2232 length=51
>SRR1658346.3 HISEQ1:187:D0NWFACXX:3:1101:2870:2103 length=51
>SRR1658346.4 HISEQ1:187:D0NWFACXX:3:1101:3001:2147 length=51
The second sequence is probably my adaptor sequence:
But on doing FastQC and MultiQC, “No samples found with any adapter contamination > 0.1%” this message is displayed.
The individual FASTQC file however predicted the occurrence of Adaptor:
What is the way out?
Is the alignment of the sequence wrong? Is it supposed to start with the adaptor sequence? So should I rewrite the fastq files?