Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00604.N3

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 328

Length: 547
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.35


Found at i:198 original size:6 final size:6

Alignment explanation


    Indices: 187--217  Score: 62
    Period size: 6  Copynumber: 5.2  Consensus size: 6

        177 GCAGACGTTA

                                                
        187 TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG T
          1 TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG T

        218 TGTGCGGGTG


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   25  1.00

ACGTcount: A:0.16, C:0.00, G:0.65, T:0.19


Consensus pattern (6 bp):   
TGGAGG

Found at i:232 original size:15 final size:14

Alignment explanation


    Indices: 192--262  Score: 74
    Period size: 15  Copynumber: 4.9  Consensus size: 14

        182 CGTTATGGAG

                           
        192 GTGGAGGTGGAGG-T
          1 GTGG-GGTGGAGGTT

               *          
        206 G-GAGGTGGAGGTT
          1 GTGGGGTGGAGGTT

                     *     
        219 GTGCGGGTGCAGGTT
          1 GTG-GGGTGGAGGTT

                           
        234 GTGGAGGTGGAGGTT
          1 GTGG-GGTGGAGGTT

                          
        249 GTGGGGGTGGAGGT
          1 GT-GGGGTGGAGGT

        263 GGAGGTGGAT


Statistics
Matches: 48,  Mismatches: 4, Indels: 9
        0.79            0.07        0.15

Matches are distributed among these distances:
  12    8  0.17
  13    3  0.06
  14    3  0.06
  15   32  0.67
  16    2  0.04

ACGTcount: A:0.11, C:0.03, G:0.62, T:0.24


Consensus pattern (14 bp):   
GTGGGGTGGAGGTT

Found at i:240 original size:30 final size:30

Alignment explanation


    Indices: 204--262  Score: 100
    Period size: 30  Copynumber: 2.0  Consensus size: 30

        194 GGAGGTGGAG

                                          
        204 GTGGAGGTGGAGGTTGTGCGGGTGCAGGTT
          1 GTGGAGGTGGAGGTTGTGCGGGTGCAGGTT

                              *     *    
        234 GTGGAGGTGGAGGTTGTGGGGGTGGAGGT
          1 GTGGAGGTGGAGGTTGTGCGGGTGCAGGT

        263 GGAGGTGGAT


Statistics
Matches: 27,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  30   27  1.00

ACGTcount: A:0.10, C:0.03, G:0.61, T:0.25


Consensus pattern (30 bp):   
GTGGAGGTGGAGGTTGTGCGGGTGCAGGTT
Done.