Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g00743.C9

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: 4584
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38


Found at i:1338 original size:11 final size:12

Alignment explanation


    Indices: 1310--1359  Score: 57
    Period size: 12  Copynumber: 4.1  Consensus size: 12

       1300 TATAACATTG

                         *
       1310 TATGTATATTGTCA
          1 TATGTATATT-T-T

                        
       1324 TATGTAT-TTTT
          1 TATGTATATTTT

                *       
       1335 TATGGATATTTT
          1 TATGTATATTTT

                        
       1347 TATGTATATTTT
          1 TATGTATATTTT

             
       1359 T
          1 T

       1360 CACTGATAAA


Statistics
Matches: 32,  Mismatches: 3, Indels: 4
        0.82            0.08        0.10

Matches are distributed among these distances:
  11    6  0.19
  12   17  0.53
  13    2  0.06
  14    7  0.22

ACGTcount: A:0.24, C:0.02, G:0.12, T:0.62


Consensus pattern (12 bp):   
TATGTATATTTT

Found at i:2102 original size:31 final size:31

Alignment explanation


    Indices: 2008--2102  Score: 129
    Period size: 32  Copynumber: 3.0  Consensus size: 31

       1998 TAAGACAATA

                                       *   
       2008 CATTAACTATTTTTTTTTCTTTCTTACACAG
          1 CATTAACTATTTTTTTTTCTTTCTTACGCAG

                                       *    
       2039 CATTAACTATTTTTTTTTTCTTTCTTAGGCAG
          1 CATTAACTA-TTTTTTTTTCTTTCTTACGCAG

                                   *   *    
       2071 CATTAACT-TTTTTTTTTCCTTTGTTATGCAG
          1 CATTAACTATTTTTTTTT-CTTTCTTACGCAG

             
       2102 C
          1 C

       2103 CCTTTTATTT


Statistics
Matches: 58,  Mismatches: 4, Indels: 4
        0.88            0.06        0.06

Matches are distributed among these distances:
  30    9  0.16
  31   21  0.36
  32   28  0.48

ACGTcount: A:0.19, C:0.18, G:0.07, T:0.56


Consensus pattern (31 bp):   
CATTAACTATTTTTTTTTCTTTCTTACGCAG
Done.