I am new to RNAseq analysis, and would very much appriciate if I can get some help with the preprocessing step.
I used fastqc to look at my mouse RNAseq data, and I am getting many errors.
The basic statistics is fine: Total Sequences 57457361 Sequences flagged as poor quality 0 Sequence length 150 %GC 49
[PASS]Per base sequence quality
[PASS]Per tile sequence quality
[PASS]Per sequence quality scores
[FAIL]Per base sequence content
[FAIL]Per sequence GC content
[PASS]Per base N content
[PASS]Sequence Length Distribution
[FAIL]Sequence Duplication Levels
Following images represents the failed steps:
Should I be worried of these errors? or should I proceed with the alignment?