Table 1 Major operations provided by the software package

Operations on entire DataSets:

Opening and saving disk files in FASTA or FASTQ (Casava 1.8) format

Grooming disk files based on quality scores

Removing duplicate sequences

Removing non-coding sequences

Sorting sequence order by: pair end, sequence length, position of match to target sequence

Operations on selected sequences:

Changing sequence length by addition or subtraction of bases

Shifting match position relative to a target sequence

Translation of sequence to amino acids

Moving sequences between DataSets

Editing sequence identity codes or descriptions

Operations for sequence discovery and assembly:

Locating matching sequences in DataSets or disk files

Viewing sequence matches to a target sequence

Walking along a sequence by searching disk files

Finding missing paired ends and matching them to the target sequence

Melding matched sequences into a single sequence

Assembling sequences by simple overlap detection