Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g00582.F2

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, 1000

Length: 3946
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37


Found at i:2310 original size:60 final size:58

Alignment explanation


    Indices: 2236--2366  Score: 151
    Period size: 58  Copynumber: 2.2  Consensus size: 58

       2226 TATACTAGTA

                                  *           *                *   *      
       2236 GTCACTCAACTATTAATAAATTTCTTTTTT-AGTTACT-CAACTATGAAAATTTATAAAATG
          1 GTCACTCAACTATTAATAAA--CCTTTTTTGA-TCA-TACAACTATGAAAAGTTACAAAATG

                  *                                                   
       2296 GTCACTTAACTATTAATAAACCTTTTTTGATCATACAACTATGAAAAGTTACAAAATG
          1 GTCACTCAACTATTAATAAACCTTTTTTGATCATACAACTATGAAAAGTTACAAAATG

                          
       2354 GTCAC-CAAACTAT
          1 GTCACTC-AACTAT

       2367 ACAATTTTGT


Statistics
Matches: 62,  Mismatches: 6, Indels: 8
        0.82            0.08        0.11

Matches are distributed among these distances:
  57    1  0.02
  58   41  0.66
  59    1  0.02
  60   19  0.31

ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37


Consensus pattern (58 bp):   
GTCACTCAACTATTAATAAACCTTTTTTGATCATACAACTATGAAAAGTTACAAAATG

Found at i:2928 original size:56 final size:60

Alignment explanation


    Indices: 2867--2983  Score: 161
    Period size: 56  Copynumber: 2.0  Consensus size: 60

       2857 GTTAGATATC

                                 *        *               *      *      
       2867 ATTTTGTAACTTTTCATAGTTGGGTGA-C-TAAAA-C-ATTTACTAGTAGTTGGGTGACT
          1 ATTTTGTAACTTTTCATAGTTAGGTGATCAAAAAAGCAATTTACTAATAGTTGAGTGACT

                          *                                             
       2923 ATTTTGTAACTTTTTATAGTTAGGTGATCAAAAAAGCAATTTACTAATAGTTGAGTGACT
          1 ATTTTGTAACTTTTCATAGTTAGGTGATCAAAAAAGCAATTTACTAATAGTTGAGTGACT

             
       2983 A
          1 A

       2984 CTAGTGTAAT


Statistics
Matches: 52,  Mismatches: 5, Indels: 4
        0.85            0.08        0.07

Matches are distributed among these distances:
  56   25  0.48
  57    1  0.02
  58    4  0.08
  59    1  0.02
  60   21  0.40

ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40


Consensus pattern (60 bp):   
ATTTTGTAACTTTTCATAGTTAGGTGATCAAAAAAGCAATTTACTAATAGTTGAGTGACT
Done.