Hello, I have a fasta file with about 400 DNA sequences. I'm trying to come up with a perl script to remove all sequences that have less than 500 nucleotides and write the >500 nucleotides sequences to a new file. Here is an example of what the fasta file looks like:

>C1_A01_R.trimmed.seq (Quality-trimmed) Agencourt Bioscience Corporation ABI

GGCCGCCAGTGTGCTGGAATCCGCCCTTAACCTGGTTGATCCCGCCAGTAGTCATACGCT CGTCTCAAAGATTAAGCCATGCATGTCTAAGTATAACTCTTTTACTTTGAAAACTGCGAA CGGCTCATTATATCAGTTATAGTTTATTTGATAGTCCCTTACTACTTGGATACCCGTAGT AATTCTAGAGCTAATACATGCATCAATACCCAACTGTTCGCGGAAGGGTAGTATTTATTA GGTATAGACCAACCGTCTTCGGACGTGCTTTGGTGATTCATAATAACTTTTCGAATCGCA TGGCTCCATGCCGGCGATGGATCATTCAAGTTTCTGCCCTATCAGCTTTGG

>C1_A03_R.trimmed.seq (Quality-trimmed) Agencourt Bioscience Corporation ABI

CCGAAGTAATTCTAGAGCTAATACATGCA

>C1_A04_R.trimmed.seq (Quality-trimmed) Agencourt Bioscience Corporation ABI

TAGTAACGGCCGCCAGTGTGCTGGAATTCGCCCTTAACCTGGTTGATCCTGCCAGTAGTC ATACGCTCGTCTCAAAGATTAGGCCATGCATGTCTAAGTATAACTCTTTTACTTTGAAAA CTGCGAACGGCTCATTATATCAGTTATAGTTTATTTGATAGTCCCTTACTACTTGGATAC CCGTAGTAATTCTAGAGCTAATACATGCATCAATACCCGACTGTTCGCGGAAGGGTAGTA TTTATTAGGTATAGACCAACCGTCTTCGGACGTGCTTTGGTGATTCATAATAACTTTTCG AATCGCATGGCTCCATGCCGGCGATGGATCATTCAAGTTTCTGCCCTATCAGCTTTGGAT GGTAGTGTATTGGACTACCATGGCTTTAACGGGTAACGAATTGTTAGGGCAAGATTTCGG AGAGGGAGCCTGAGAGACGGCTACCACATCCAAGGAAGGCAGCGGGCGCGTAAATTACCC

Does anyone out there have any scripting suggestions????

In reply to Parse DNA fasta file by Anonymous Monk

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