Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g00151.M1

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: 3124
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31


Found at i:327 original size:15 final size:15

Alignment explanation


    Indices: 307--351  Score: 72
    Period size: 15  Copynumber: 3.0  Consensus size: 15

        297 CAAGAACAAG

                      *    
        307 AGCAACAACAGCAGC
          1 AGCAACAACAACAGC

                           
        322 AGCAACAACAACAGC
          1 AGCAACAACAACAGC

                *          
        337 AGCAGCAACAACAGC
          1 AGCAACAACAACAGC

        352 TTCTTGGTTT


Statistics
Matches: 28,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   28  1.00

ACGTcount: A:0.49, C:0.33, G:0.18, T:0.00


Consensus pattern (15 bp):   
AGCAACAACAACAGC

Found at i:330 original size:18 final size:18

Alignment explanation


    Indices: 309--349  Score: 82
    Period size: 18  Copynumber: 2.3  Consensus size: 18

        299 AGAACAAGAG

                              
        309 CAACAACAGCAGCAGCAA
          1 CAACAACAGCAGCAGCAA

                              
        327 CAACAACAGCAGCAGCAA
          1 CAACAACAGCAGCAGCAA

                 
        345 CAACA
          1 CAACA

        350 GCTTCTTGGT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   23  1.00

ACGTcount: A:0.51, C:0.34, G:0.15, T:0.00


Consensus pattern (18 bp):   
CAACAACAGCAGCAGCAA

Found at i:2503 original size:23 final size:23

Alignment explanation


    Indices: 2463--2507  Score: 56
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       2453 ATATAAATTT

                       *            
       2463 TCTTGGTAAAAGTATAATGAAATA
          1 TCTTGGTAAAAATATAAT-AAATA

                         *        
       2487 TCTT-GTAAAAATTTAATAAAT
          1 TCTTGGTAAAAATATAATAAAT

       2508 TAATTTATGT


Statistics
Matches: 19,  Mismatches: 2, Indels: 2
        0.83            0.09        0.09

Matches are distributed among these distances:
  22    4  0.21
  23   11  0.58
  24    4  0.21

ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38


Consensus pattern (23 bp):   
TCTTGGTAAAAATATAATAAATA
Done.