fasta

How do I merge two FASTA files (one file with line break) in Perl?

I have two following Fasta file: file1.fasta >0 GAATAGATGTTTCAAATGTACCAATTTCTTTCGATT >1 GTTAAGTTATATCAAACTAAATATACATACTATAAA >2 GGGGCTGTGGATAAAGATAATTCCGGGTTCGAATAC file2.qual >0 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40 15 40 40 >1 40 40 40 40 40 40 40 40 40 40 40 40 40 40 40...

Python: Removing characters from beginnings of sequences in fasta format

Hi, I have sequences in fasta format that contains primers of 17 bp at the beginning of the sequences. And the primers sometimes have mismatches. I therefore want to remove the first 17 chars of the sequences, except from the fasta header. The sequences look like this: > name_name_number_etc SEQUENCEFOLLOWSHERE > name_number_etc SEQUE...

multiFASTA file processing

Hi all, I was curious to know if there is any bioinformatics tool out there able to process a multiFASTA file giving me infos like number of sequences, length, nucleotide/aminoacid content, etc. and maybe automatically draw descriptive plots. Also an R BIoconductor solution or a BioPerl module would do, but I didn't manage to find anyth...

Best way to read a FASTA file in c#

Hi there. I have a FASTA file containing several protein sequences. The format is like ---------------------- >protein1 MYRALRLLARSRPLVRAPAAALASAPGLGGAAVPSFWPPNAAR MASQNSFRIEYDTFGELKVPNDKYYGAQTVRSTMNFKIGGVTE RMPTPVIKAFGILKRAAAEVNQDYGLDPKIANAIMKAADEVAE GKLNDHFPLVVWQTGSGTQTNMNVNEVISNRAIEMLGGELGSK IPVHPNDHVNKSQ >protein2 MRSRPAGPALLLLLLF...