This program is designed to speed up the process of submitting HIV sequences to GenBank via NCBI's Sequin program. It is ideal for the batch sequence submission. It makes a special formated table required for running NCBI's tbl2asn program to generate .sqn file for submission to GenBank.
LANL's GeneCutter output files of submitted sequences.
How to run
chmod +x AutoSequin.pl
Create a subdirectory in your working directory to hold input files. In the subdirectory, type following command:
perl ../AutoSequin.pl SequenceFastaFile OutputTableFile(requires same name as SequenceFastaFile)