File: consensusFinder.1

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'\" t
.\"     Title: consensusfinder
.\"    Author: [see the "AUTHORS" section]
.\" Generator: Asciidoctor 1.5.5.dev
.\"      Date: 
.\"    Manual: \ \&
.\"    Source: \ \&
.\"  Language: English
.\"
.TH "CONSENSUSFINDER" "1" "" "\ \&" "\ \&"
.ie \n(.g .ds Aq \(aq
.el       .ds Aq '
.ss \n[.ss] 0
.nh
.ad l
.de URL
\\$2 \(laURL: \\$1 \(ra\\$3
..
.if \n[.g] .mso www.tmac
.LINKSTYLE blue R < >
.SH "NAME"
consensusfinder \- consensus finder
.SH "SYNOPSIS"
.sp
\fBconsensusFinder\fP input_fasta_file [options]
.SH "OPTIONS"
.sp
\fB\-l\fP
.RS 4
pattern length
.RE
.sp
\fB\-p\fP
.RS 4
p\-value for finding the significant strings
.RE
.sp
\fB\-d\fP
.RS 4
delta to find the relevant strings
.RE
.sp
\fB\-s\fP
.RS 4
starting position
.RE
.sp
\fB\-e\fP
.RS 4
ending position
.RE
.sp
\fB\-m\fP
.RS 4
no. of mismatches to consider while finding neighbours
.RE
.sp
\fB\-c\fP
.RS 4
string to consider for analysis
.RE
.sp
\fB\-n\fP
.RS 4
specify the number of consensus patterns to store
.RE
.sp
\fB\-t\fP
.RS 4
print the histogram
.RE
.SH "AUTHORS"
.sp
AUGUSTUS was written by M. Stanke, O. Keller, S. K├Ânig, L. Gerischer and L. Romoth.
.SH "ADDITIONAL DOCUMENTATION"
.sp
An exhaustive documentation can be found in the file /usr/share/augustus/README.TXT.