Provided by: ncbi-epcr_2.3.12-1-1_amd64
NAME
e-PCR — Find sequence tagged sites (STS) in DNA sequences
SYNOPSIS
e-PCR [-hV] [posix-options] stsfile [fasta ...] [compat-options]
DESCRIPTION
The program substitutes blast in the location of pairs primers on the genome that may yield a PCR product.
OPTIONS
posix-options are: -m=## Margin (default 50) -w=## Wordsize (default 7) -n=## Max mismatches allowed (default 0) -g=## Max indels allowed (default 0) -f=## Use ## disontiguous words, slow if ##>1 -o=## Set output file -t=## Set output format: 1 - classic, range (pos1..pos2) 2 - classic, midpoint 3 - tabular 4 - tabular with alignment in comments (slow) -d=##-## Set default size range (default 100-350) -p=+- Turn hits postprocess on/off -v=## Verbosity flags -a=a|f Use presize alignments (only if gaps>0), slow a - Always or f - as Fallback -x=+- Use 5'-end lowercase masking of primers (default -) -u=+- Uppercase all primers (default -) compat-options (duplicate posix-options) are M=## Margin (default 50) W=## Wordsize (default 7) N=## Number of mismatches allowed (default 0) G=## Max indels allowed (default 0) F=## Use ## discontinuous words O=## Set output file to ## T=## Set output format (1..3) D=##-## Set default size range P=+- Postprocess hits on/off V=## Verbosity flags A=a|f Use presize alignments (only if gaps>0), slow a - Always or f - as Fallback X=+- Use 5'-end lowercase masking of primers (default -) U=+- Uppercase all primers (default -) -mid Same as T=2 For information about further options just call e-PCR without any options.
SEE ALSO
/usr/share/doc/ncbi-epcr/README.txt bioperl(1), re-pcr(1)
AUTHORS
This manual page was written by Steffen Moeller <moeller@debian.org> and Andreas Tille <tille@debian.org> for the Debian system (but may be used by others). Permission is granted to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 2 any later version published by the Free Software Foundation. On Debian systems, the complete text of the GNU General Public License can be found in /usr/share/common-licenses/GPL. February 2004 E-PCR(1)