NAME

       seqstat - show statistics and format for a sequence file

SYNOPSIS

       seqstat [options] seqfile

DESCRIPTION

       seqstat reads a sequence file seqfile and shows a number of simple statistics about it.

       The  printed  statistics  include  the  name  of the format, the residue type of the first
       sequence (protein, RNA, or DNA), the number of sequences, the total  number  of  residues,
       and the average and range of the sequence lengths.

OPTIONS

       -a     Show  additional  verbose  information:  a table with one line per sequence showing
              name, length, and description line.  These lines are prefixed with a * character to
              enable easily grep'ing them out and sorting them.

       -h     Print  brief  help;  includes  version number and summary of all options, including
              expert options.

       -B     (Babelfish). Autodetect and read a sequence file  format  other  than  the  default
              (FASTA).  Almost  any common sequence file format is recognized (including Genbank,
              EMBL, SWISS-PROT, PIR, and GCG unaligned sequence formats, and Stockholm, GCG  MSF,
              and  Clustal  alignment formats). See the printed documentation for a complete list
              of supported formats.

EXPERT OPTIONS

       --informat <s>
              Specify that the sequence file is in format <s>,  rather  than  the  default  FASTA
              format.   Common examples include Genbank, EMBL, GCG, PIR, Stockholm, Clustal, MSF,
              or PHYLIP; see the printed documentation for a complete  list  of  accepted  format
              names.   This  option  overrides  the  default  expected  format (FASTA) and the -B
              Babelfish autodetection option.

       --quiet
              Suppress the verbose header (program name, release number and date, the  parameters
              and options in effect).

SEE ALSO

       afetch(1),  alistat(1),  compalign(1),  compstruct(1), revcomp(1), seqsplit(1), sfetch(1),
       shuffle(1), sindex(1), sreformat(1), stranslate(1), weight(1).

AUTHOR

       Biosquid and its documentation are  Copyright  (C)  1992-2003  HHMI/Washington  University
       School  of  Medicine  Freely  distributed  under  the GNU General Public License (GPL) See
       COPYING in the source code distribution for more details, or contact me.

       Sean Eddy
       HHMI/Department of Genetics
       Washington University School of Medicine
       4444 Forest Park Blvd., Box 8510
       St Louis, MO 63108 USA
       Phone: 1-314-362-7666
       FAX  : 1-314-362-2157
       Email: eddy@genetics.wustl.edu