--- 
"[bifooxir]": 
  MOTIF_LENGTH: 
    :description: motif length identified by bifooxi tool
    :value: 11
  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: 6
  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: 6
  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
  EXTENDED_MODE: 
    :description: extended search mode
    :value: false
  POSITION_INFOCOD: 
    :description: best discrete information content for motif Ubx (bismark=UBX_motif_15.xml)
    :value: 
    - -1.22179332099366
    - -1.22947058564769
    - -1.12154437260544
    - -1.01155409124438
    - -0.722072639140072
    - -0.669093899138414
    - -0.661595284627098
    - -0.800056639715981
    - -0.95589694754769
    - -0.990756846111198
    - -0.984525002196419
    - -0.623775565182624
    - -0.693787308153819
    - -0.192319630600928
    - -0.802843279635331
  LEADER_DELTA: 
    :description: delta for word-pair corresponding to matrix with the best final discrete information content
    :value: 10
  BEST_PAIR: 
    :description: words pair used for initial PCM construction
    :value: 
    - AATAAAGAAAAATGT
    - CCAATAATAACAATA
  MOTIF_LOGO: 
    :path: UBX_motif_15.xml.png
    :description: resulting motif logo
  FLANK_LENGTH: 
    :description: flank length used
    :value: 11
  TOTAL_INFOCOD: 
    :description: best discrete information content for motif Ubx (bismark=UBX_motif_15.xml)
    :value: -12.6810854125407
  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: 60
"[bifoosig]": 
  MIN_SEQUENCE_LENGTH: 
    :description: length of the shortest sequence in the set
    :value: 5
  LEADER_DELTA: 
    :description: delta for word-pair corresponding to matrix with the best final discrete information content for different motif lengths
    :value: 
    - 2
    - 0
    - 7
    - 3
    - 6
    - 3
    - 7
    - 7
    - 11
    - 10
  EXTENDED_MODE: 
    :description: extended search mode
    :value: "false"
  ADD_FLANK_LENGTH: 
    :description: additional flank length
    :value: 1
  MOTIF_FOUND: 
    :description: no motif found till length 15
    :value: false
  MIN_MOTIF_LENGTH: 
    :description: minimum motif length allowed
    :value: 6
  TOTAL_INFOCOD: 
    :description: best total discrete information content for different motif lengths
    :value: 
    - -3.03794950021969
    - -4.16976219906248
    - -5.23511119513718
    - -6.16995491583058
    - -7.24296588486835
    - -8.29260135584189
    - -9.21397732643257
    - -10.3388632546278
    - -11.5404060371893
    - -12.6810854125407
  LEADER_PHASE: 
    :description: <Footstep> search phase corresponding to matricx with the best final discrete information content for different motif lengths
    :value: 
    - 0
    - 0
    - 0
    - 0
    - 0
    - 0
    - 0
    - 0
    - 0
    - 0
  MAX_MOTIF_LENGTH: 
    :description: maximum motif length allowed
    :value: 15
  START_FLANK_LENGTH: 
    :description: starting flank length used for the shortest motif
    :value: 2
  SEQUENCE_COUNT: 
    :description: total number of sequences in the set
    :value: 60
  LENGTH_MODE: 
    :description: motif length identification mode
    :value: disabled
"[bifooxi_cons]": 
  MOTIF_LENGTH: 
    :description: motif length identified by chi-square criterion
    :value: 6
  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: UBX_footprints.xml
    :description: segments extracted from bismark db using source_id=BE_DMEL, factor_name=Ubx
"[flancalc]": 
  FLANK_LENGTH: 
    :description: calculated flank length
    :value: 2
"[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: 60
