--- 
"[bifooxir]": 
  MOTIF_LENGTH: 
    :description: motif length identified by bifooxi tool
    :value: 8
  SIGNIFICANCE_HIGH: 
    :description: chi-square criterion significance upper border
    :value: 0.01
  SIGNIFICANCE_LOW: 
    :description: chi-square criterion significance lower border
    :value: 0.05
  SIGNIFICANCE_DELTA: 
    :description: chi-square criterion significance delta
    :value: 0.005
"[bifooxi]": 
  MOTIF_LENGTH: 
    :description: motif length identified by chi-square criterion
    :value: 8
  SIGNIFICANCE_LEVEL: 
    :description: chi-square criterion significance level
    :value: 0.05
  MONTECARLO_COUNT: 
    :description: number of montecarlo iterations for background sampling
    :value: 1024
"[bifooxi_cu]": 
  MOTIF_LENGTH: 
    :description: motif length identified by chi-square criterion
    :value: 15
  SIGNIFICANCE_LEVEL: 
    :description: chi-square criterion significance level
    :value: 0.05
  MONTECARLO_COUNT: 
    :description: number of montecarlo iterations for background sampling
    :value: 1
"[bigfoot]": 
  MOTIF_LENGTH: 
    :description: motif length used
    :value: 15
  LEADER_DELTA: 
    :description: delta for word-pair corresponding to matrix with the best final discrete information content
    :value: 11
  POSITION_INFOCOD: 
    :description: best discrete information content for motif eve (bismark=EVE_motif_15.xml)
    :value: 
    - -0.721468820379825
    - -0.482442666706527
    - -0.795612579833171
    - -0.753800178623144
    - -0.406869791499899
    - -0.878045511112543
    - -0.873694942265993
    - -0.652502535783767
    - -0.513873099671778
    - -0.691162030201309
    - -1.12218560724473
    - -0.843388152087477
    - -1.07314414459128
    - -0.799614715219779
    - -0.406869791499899
  EXTENDED_MODE: 
    :description: extended search mode
    :value: true
  BEST_PAIR: 
    :description: words pair used for initial PCM construction
    :value: 
    - CCACTCTCAGCACCG
    - GTCATAATTGCGGTG
  MOTIF_LOGO: 
    :path: EVE_motif_15.xml.png
    :description: resulting motif logo
  FLANK_LENGTH: 
    :description: flank length used
    :value: 10
  TOTAL_INFOCOD: 
    :description: best discrete information content for motif eve (bismark=EVE_motif_15.xml)
    :value: -11.0146745667211
  LEADER_PHASE: 
    :description: <Footstep> search phase corresponding to matrix with the best final discrete information content
    :value: 0
  SEQUENCE_COUNT: 
    :description: sequence set size
    :value: 20
"[bifoosig]": 
  MIN_SEQUENCE_LENGTH: 
    :description: length of the shortest sequence in the set
    :value: 10
  EXTENDED_MODE: 
    :description: extended search mode
    :value: "true"
  LEADER_DELTA: 
    :description: delta for word-pair corresponding to matrix with the best final discrete information content for different motif lengths
    :value: 
    - 0
    - 2
    - 0
    - 1
    - 3
    - 4
    - 4
    - 5
    - 5
    - 11
  ADD_FLANK_LENGTH: 
    :description: additional flank length
    :value: 1
  MIN_MOTIF_LENGTH: 
    :description: minimum motif length allowed
    :value: 6
  MOTIF_FOUND: 
    :description: no motif found till length 15
    :value: false
  TOTAL_INFOCOD: 
    :description: best total discrete information content for different motif lengths
    :value: 
    - -2.75127400379819
    - -3.34953703017193
    - -4.23035761150231
    - -5.24590932177989
    - -6.2282678308555
    - -7.12891259815519
    - -8.15822198412331
    - -9.10608251943571
    - -10.0462636621805
    - -11.0146745667211
  LEADER_PHASE: 
    :description: <Footstep> search phase corresponding to matricx with the best final discrete information content for different motif lengths
    :value: 
    - 0
    - 1
    - 0
    - 1
    - 0
    - 1
    - 2
    - 1
    - 0
    - 0
  LENGTH_MODE: 
    :description: motif length identification mode
    :value: disabled
  SEQUENCE_COUNT: 
    :description: total number of sequences in the set
    :value: 20
  START_FLANK_LENGTH: 
    :description: starting flank length used for the shortest motif
    :value: 1
  MAX_MOTIF_LENGTH: 
    :description: maximum motif length allowed
    :value: 15
"[bifooxi_cons]": 
  MOTIF_LENGTH: 
    :description: motif length identified by chi-square criterion
    :value: 8
  SIGNIFICANCE_LEVEL: 
    :description: chi-square criterion significance level
    :value: 0.05
  MONTECARLO_COUNT: 
    :description: number of montecarlo iterations for background sampling
    :value: 2048
"[segexbsm]": 
  BISMARK_OUT: 
    :path: EVE_footprints.xml
    :description: segments extracted from bismark db using source_id=BE_DMEL, factor_name=eve
"[flancalc]": 
  FLANK_LENGTH: 
    :description: calculated flank length
    :value: 3
"[flkscn3]": 
  MONTECARLO_COUNT: 
    :description: number of montecarlo iterated words for PWMs longer than 10
    :value: 1048576
"[pmfin]": 
  MONTECARLO_COUNT: 
    :description: number of montecarlo iterated words for PWMs longer than 10
    :value: 1048576
  SEQUENCE_COUNT: 
    :description: initial sequence count
    :value: 20
