OnWorks favicon

fasta2frag - Online in the Cloud

Run fasta2frag in OnWorks free hosting provider over Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

This is the command fasta2frag that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator



fasta2frag - splits a single fasta sequence into several overlapping fragments.


This program is part of the MIRA assembler package. The purpose of fasta2frag is to
fragment sequences into smaller, overlapping subsequences. It can be used for simulating
shotgun sequences. It can create subsequences in both directions (/default) and also
paired-end sequences. Please check out the documentation below for more detailed
information about fasta2frag.


fasta2frag <options> infile outfile


-l int Length of fragments (default=3000)

-i int Increment of fragment start site (default=2500)

-p int Paired end (default=0 is off, 1 is on)

-P int In paired-end mode, reverse one of the reads (0 is off, default=1 is on)

-s int Strobe sequencing (default=0 is off, 1 is on)

-q int Default quality when no quality data present (default=30)

-r int Reverse every nth fragment (default=2)

-c int Circularise fragments so that they form a ring

(default=0 is is off, 1 would be on)

int Divide quality values by this (default=1)

int But give it at least this qual (default=0)

int paired-end: insert size (default=3000)

-insert_stdev int
paired-end: standard dev (default=900) this is not working at the moment

-pairednaming string
naming scheme for paired-end: sanger, 454 (default) or solexa

int min. number of mutations/seq. errors (def=0)

int max. number of mutations/seq. errors (def=0)

int number of bases read during strobe on

int number of bases during strobe off

int start at offset position

string suffix name with string

Use fasta2frag online using onworks.net services

Free Servers & Workstations

Download Windows & Linux apps

  • 1
    Clementine is a multi-platform music
    player and library organizer inspired by
    Amarok 1.4. It has a fast and
    easy-to-use interface, and allows you to
    search and ...
    Download Clementine
  • 2
    ATTENTION: Cumulative update 2.4.3 has
    been released!! The update works for any
    previous 2.x.x version. If upgrading
    from version v1.x.x, please download and
    Download XISMuS
  • 3
    Modular headtracking program that
    supports multiple face-trackers, filters
    and game-protocols. Among the trackers
    are the SM FaceAPI, AIC Inertial Head
    Tracker ...
    Download facetracknoir
  • 4
    PHP QR Code
    PHP QR Code
    PHP QR Code is open source (LGPL)
    library for generating QR Code,
    2-dimensional barcode. Based on
    libqrencode C library, provides API for
    creating QR Code barc...
    Download PHP QR Code
  • 5
    Cuckoo Sandbox
    Cuckoo Sandbox
    Cuckoo Sandbox uses components to
    monitor the behavior of malware in a
    Sandbox environment; isolated from the
    rest of the system. It offers automated
    analysis o...
    Download Cuckoo Sandbox
  • 6
    Play YouTube video on LMS (porting of
    Triode's to YouTbe API v3) This is
    an application that can also be fetched
    Download LMS-YouTube
  • 7
    dotnet sdk
    dotnet sdk
    Core functionality needed to createNET
    Core projects, that is shared between
    Visual Studio and CLI. There are no fees
    or licensing costs, including for
    Download dotnet sdk
  • More »

Linux commands