Genome Explorer short help

"Cut" command

    The window "Cut" serves to allocation of a fragment from a sequence or cutting out (deletion) of a fragment from a sequence. In heading after a mark "#" the dropping down list serves to a choice of an entering sequence is located.
  • The field "Result (sequence name)" serves to set a name of a resulting sequence. By default to sequences assign names: seq 1 , seq 2 etc. The given field should be obligatory filled.
  • The field "from" serves for definition of number of the first position of a fragment for sequences.
  • The field "to" serves for definition of number of last position of a fragment.
  • The field "length" serves for definition of a length of a fragment.
  • The panel "what to do" serves for definition of a kind of operation above a fragment:
    • "keep" - to leave only the given fragment
    • "delete" - to remove the given fragment from a sequence.
  • The field "Command summary" displays the current adjustments of a command (the chosen parameters). The given field is only information and does not serve for adjustment of parameters of command.

    Notes.
  • Parameters "from", "to" and "length" are connected among themselves. Simultaneously can be given no more than two parameters. At recalculation of parameters there is a check that values of parameters do not contradict each other and are intelligent.
  • If parameters "from", "to" and "length" are not given, to parameter "from" value "BEGIN" is appropriated (the beginning of a sequence), to parameter "To" is appropriated value "END" (the end of a sequence).
  • If the parameter "length" is given only, to parameter "to" value "BEGIN" is appropriated (the beginning of a sequence), to parameter "to" value of parameter "length" is appropriated.
  • If the parameter "to" is given only, to parameter "from" value "BEGIN" (the beginning of a sequence) is appropriated.
  • If the parameter "from" is given only, to parameter "to" value "END" (the end of a sequence) is appropriated.
  • If parameters "from" and "length" are given, value "to" is calculated in view of the specified values (to=from length-1).
  • If parameters "to" and "length" are given, value "from" is calculated in view of the specified values (from=to-lenhgth+1).