Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01149.P2

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: 5500
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37


Found at i:70 original size:14 final size:14

Alignment explanation


    Indices: 51--78  Score: 56
    Period size: 14  Copynumber: 2.0  Consensus size: 14

         41 ATCTAATTTC

                          
         51 CCCCAAATCGAAAT
          1 CCCCAAATCGAAAT

                          
         65 CCCCAAATCGAAAT
          1 CCCCAAATCGAAAT

         79 TCTTCCACCA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   14  1.00

ACGTcount: A:0.43, C:0.36, G:0.07, T:0.14


Consensus pattern (14 bp):   
CCCCAAATCGAAAT

Found at i:167 original size:14 final size:14

Alignment explanation


    Indices: 148--191  Score: 79
    Period size: 14  Copynumber: 3.1  Consensus size: 14

        138 ATTTCCTGCT

                          
        148 TCTCTAAATCTCCA
          1 TCTCTAAATCTCCA

                         *
        162 TCTCTAAATCTCCT
          1 TCTCTAAATCTCCA

                          
        176 TCTCTAAATCTCCA
          1 TCTCTAAATCTCCA

              
        190 TC
          1 TC

        192 CCTTTGATTT


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

Matches are distributed among these distances:
  14   28  1.00

ACGTcount: A:0.25, C:0.36, G:0.00, T:0.39


Consensus pattern (14 bp):   
TCTCTAAATCTCCA

Found at i:4999 original size:21 final size:23

Alignment explanation


    Indices: 4959--5000  Score: 61
    Period size: 23  Copynumber: 1.9  Consensus size: 23

       4949 AGTGAGCTTA

                 *                 
       4959 AAATTGATCTATTCGAATGTGTT
          1 AAATTCATCTATTCGAATGTGTT

                                 
       4982 AAATTCAT-TATTC-AATGTG
          1 AAATTCATCTATTCGAATGTG

       5001 ATGTTATTTA


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  21    6  0.33
  22    5  0.28
  23    7  0.39

ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43


Consensus pattern (23 bp):   
AAATTCATCTATTCGAATGTGTT
Done.