Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_06471

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: 1725
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25


Found at i:764 original size:21 final size:21

Alignment explanation


    Indices: 701--766  Score: 64
    Period size: 21  Copynumber: 3.1  Consensus size: 21

        691 TTAACTTCGT

                                 
        701 CAACTAAGCCCACAGTTTCTG
          1 CAACTAAGCCCACAGTTTCTG

              * *     *        *   
        722 CAGCCAAGGCTC-CA-TCTCCTG
          1 CAACTAA-GCCCACAGT-TTCTG

                                 
        743 CAACTAAGCCCACAGTTTCTG
          1 CAACTAAGCCCACAGTTTCTG

               
        764 CAA
          1 CAA

        767 GATCCTCCAC


Statistics
Matches: 33,  Mismatches: 8, Indels: 8
        0.67            0.16        0.16

Matches are distributed among these distances:
  20    4  0.12
  21   25  0.76
  22    4  0.12

ACGTcount: A:0.27, C:0.36, G:0.15, T:0.21


Consensus pattern (21 bp):   
CAACTAAGCCCACAGTTTCTG

Found at i:1468 original size:15 final size:15

Alignment explanation


    Indices: 1448--1477  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       1438 AAATCACTGG

                  *        
       1448 ATATGGCTATAAGGC
          1 ATATGGATATAAGGC

                           
       1463 ATATGGATATAAGGC
          1 ATATGGATATAAGGC

       1478 GAAGCATTCC


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27


Consensus pattern (15 bp):   
ATATGGATATAAGGC
Done.