Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00500.N1

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, 680

Length: 1134
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29


Found at i:275 original size:26 final size:25

Alignment explanation


    Indices: 246--351  Score: 158
    Period size: 26  Copynumber: 4.1  Consensus size: 25

        236 TGGTACAAAT

                                      
        246 TGATAATAGGTTAGGTAAATGTTCAA
          1 TGATAATAGGTTAGGTAAATGTTC-A

                                      
        272 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATAGGTTAGGTAAATGTT-CA

                   *                  
        298 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATG-TTCA

                   *                  
        324 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATG-TTCA

              
        350 TG
          1 TG

        352 CTAAGAATTT


Statistics
Matches: 77,  Mismatches: 1, Indels: 4
        0.94            0.01        0.05

Matches are distributed among these distances:
  26   74  0.96
  27    3  0.04

ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37


Consensus pattern (25 bp):   
TGATAATAGGTTAGGTAAATGTTCA

Found at i:1058 original size:66 final size:65

Alignment explanation


    Indices: 927--1060  Score: 153
    Period size: 66  Copynumber: 2.0  Consensus size: 65

        917 GCAAATTGCT

                      *          *                        *           * *    
        927 CAACTTAAAGTGGAGGCAGCATCGAGAGAAGCAAAGGCTCAAAGAATATATGAAGAACTCTAGCT
          1 CAACTTAAAGCGGAGGCAGCAACGAGAGAAGCAAAGGC-CAAAGAAAATATGAAGAACCCCAGCT

             
        992 A
         65 A

                                      *      *                    * *        
        993 CAACTTAAAGCGGAGGCAGCAACGAGGGAAGCAGAGG-CAAGCAGAAAATATGACGGACCCCAGC
          1 CAACTTAAAGCGGAGGCAGCAACGAGAGAAGCAAAGGCCAA--AGAAAATATGAAGAACCCCAGC

              
       1057 TA
         64 TA

              
       1059 CA
          1 CA

       1061 GCTTCAGAAT


Statistics
Matches: 57,  Mismatches: 9, Indels: 4
        0.81            0.13        0.06

Matches are distributed among these distances:
  64    3  0.05
  66   54  0.95

ACGTcount: A:0.41, C:0.20, G:0.27, T:0.12


Consensus pattern (65 bp):   
CAACTTAAAGCGGAGGCAGCAACGAGAGAAGCAAAGGCCAAAGAAAATATGAAGAACCCCAGCTA
Done.