Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_10806

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, 813

Length: 1356
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23


Found at i:1061 original size:36 final size:36

Alignment explanation


    Indices: 1016--1095  Score: 97
    Period size: 36  Copynumber: 2.2  Consensus size: 36

       1006 GGACCAAGTT

                *                    *          
       1016 CTGGTTATGGACAAAATTTCGGACAGGGGGCAAATC
          1 CTGGCTATGGACAAAATTTCGGACAAGGGGCAAATC

                      *  *     *  *             
       1052 CTGGCTATGGGCAGAATTTTGGGCAAGGGGCAAATC
          1 CTGGCTATGGACAAAATTTCGGACAAGGGGCAAATC

               *    
       1088 CTGACTAT
          1 CTGGCTAT

       1096 ACCCAGAATC


Statistics
Matches: 37,  Mismatches: 7, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  36   37  1.00

ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24


Consensus pattern (36 bp):   
CTGGCTATGGACAAAATTTCGGACAAGGGGCAAATC

Found at i:1103 original size:36 final size:36

Alignment explanation


    Indices: 1042--1115  Score: 94
    Period size: 36  Copynumber: 2.1  Consensus size: 36

       1032 TTTCGGACAG

                         *    ***      **       
       1042 GGGGCAAATCCTGGCTATGGGCAGAATTTTGGGCAA
          1 GGGGCAAATCCTGACTATACCCAGAATCCTGGGCAA

                                                
       1078 GGGGCAAATCCTGACTATACCCAGAATCCTGGGCAA
          1 GGGGCAAATCCTGACTATACCCAGAATCCTGGGCAA

              
       1114 GG
          1 GG

       1116 CTACGACCGA


Statistics
Matches: 32,  Mismatches: 6, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  36   32  1.00

ACGTcount: A:0.27, C:0.22, G:0.32, T:0.19


Consensus pattern (36 bp):   
GGGGCAAATCCTGACTATACCCAGAATCCTGGGCAA
Done.