Dr. Greg Quinn <greg at franklin.burnham-inst.org> wrote in message
news:7k8pmm$6i4$1 at franklin.ljcrf.edu...
> Does anyone know of a currently existing piece of software
> (to save me time writing it) which will scan and identify
> an insert region within a vector sequence when the flanking
> phage insert site sequence is known?
you could use http://www.crc.dk/phys/A01B04_dnatools.htm
the function 'search' together with the option 'select from start' will
select the vector sequence which can then be 'cut' leaving the sequence
You can get a free version off the software, no updates.