Hello and thanks for reading,
We have the entire genome of an ancient Eskimo downloaded in FASTQ from NCBI's Short Read Archive (SRA) and now converted into FASTA. We have carried out BLAST (stand alone) and the results as .csv files, with this and particular criteria involving the results we filter out the 'spots'/short reads that contain the sequence data we are interested in (the sequences are identified by accession numbers and a -presumably arbitrary- 'definition').
We would like to know how we can separate the spots we are interested in from the entire collection of downloaded spots that compose the genome. We thought that the accession numbers we wanted could be collected and BLASTed on NCBI, but NCBI would only allow a maximum of 15 accession numbers at a time, yet we have a couple of thousand that need to be BLASTed, so that method will not work. Please suggest to us any methods or tools that can allow us to achieve this, thanks!!!!
We have the entire genome of an ancient Eskimo downloaded in FASTQ from NCBI's Short Read Archive (SRA) and now converted into FASTA. We have carried out BLAST (stand alone) and the results as .csv files, with this and particular criteria involving the results we filter out the 'spots'/short reads that contain the sequence data we are interested in (the sequences are identified by accession numbers and a -presumably arbitrary- 'definition').
We would like to know how we can separate the spots we are interested in from the entire collection of downloaded spots that compose the genome. We thought that the accession numbers we wanted could be collected and BLASTed on NCBI, but NCBI would only allow a maximum of 15 accession numbers at a time, yet we have a couple of thousand that need to be BLASTed, so that method will not work. Please suggest to us any methods or tools that can allow us to achieve this, thanks!!!!
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