Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00001.P3

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: 18441
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36


Found at i:74 original size:18 final size:19

Alignment explanation


    Indices: 38--75  Score: 53
    Period size: 18  Copynumber: 2.1  Consensus size: 19

         28 CTTTTCTCCA

                               
         38 TTTTTCTACTATTTTTCTT
          1 TTTTTCTACTATTTTTCTT

                                
         57 TTTTTCT-CT-TTTTCTCTT
          1 TTTTTCTACTATTTT-TCTT

             
         75 T
          1 T

         76 CCTCCTTTAT


Statistics
Matches: 18,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  17    4  0.22
  18    7  0.39
  19    7  0.39

ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76


Consensus pattern (19 bp):   
TTTTTCTACTATTTTTCTT

Found at i:17836 original size:44 final size:44

Alignment explanation


    Indices: 17768--17867  Score: 155
    Period size: 44  Copynumber: 2.3  Consensus size: 44

      17758 AGCGACAAGC

                 *                   *         *        
      17768 GACAAATGATAAGTGGTAGCTTTAGTTACACTTATTTGATCAGT
          1 GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT

                               *                        
      17812 GACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
          1 GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT

                   *    
      17856 GACAAGTAATAA
          1 GACAAGTGATAA

      17868 ATGTGGTCAG


Statistics
Matches: 51,  Mismatches: 5, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  44   51  1.00

ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33


Consensus pattern (44 bp):   
GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Done.