Hi all,
After the first look, I make a rapid clone survey, to my small RNA library (for Illumina); things seem to be working. But I want to measure the grade of contamination from other sequences, like degraded rRNA, tRNA or even E.coli sequences. I think it could be a good starting point to BLAST my seqs against specific ribosomal RNA databases and/or E.coli database (intead of the whole nt db).
So my question is: where can I find these databases? I'm being looking for a while throught the ncbi/embl but cound't find anything. Or if anyone has a better idea to check out this contamination...
After the first look, I make a rapid clone survey, to my small RNA library (for Illumina); things seem to be working. But I want to measure the grade of contamination from other sequences, like degraded rRNA, tRNA or even E.coli sequences. I think it could be a good starting point to BLAST my seqs against specific ribosomal RNA databases and/or E.coli database (intead of the whole nt db).
So my question is: where can I find these databases? I'm being looking for a while throught the ncbi/embl but cound't find anything. Or if anyone has a better idea to check out this contamination...
Comment