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Man Pages
bl_next_stop_codon(3) FreeBSD Library Functions Manual bl_next_stop_codon(3)

#include <biolibc/translate.h>
-lbiolibc

long bl_next_stop_codon(FILE *rna_stream, char codon[4])

rna_stream  FILE stream containing RNA sequence data
codon       4-character buffer to receive codon sequence
Set to "" if no codon found

Locate the next stop codon in stream and report its position in the input. Reported positions are 0-based offsets from the file position at the time of the call. Hence, to find the absolute positions of codons within a file stream across multiple calls to next_start_codon() or next_stop_codon(), their return values should added to the previous return value + 3 (the size of the previous codon). For example, givent the following input:

acaucauguucguggugacc

A call to next_start_codon() will return 5 (off set of AUG from the beginning of the sequence and a subsequent call to next_stop_codon() will return 7 (offset of UGA from the first base after the AUG).

1-based position of the next stop codon within the stream or EOF if no codon is found.

unsigned long   pos;
char            codon[4];
if ( (pos = next_start_codon(stdin)) != EOF )
{
    printf("Start codon at %lu.n", pos);
    if ( (pos = next_stop_codon(stdin, codon)) != EOF )
        printf("Stop codon %s at %lu.n", codon, pos);
    else
        puts("No stop codon found.");
}
else
    puts("No start codon found.");

next_stop_codon(3)


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