Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_15887

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, 765

Length: 1275
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24


Found at i:1043 original size:24 final size:24

Alignment explanation


    Indices: 1014--1064  Score: 75
    Period size: 24  Copynumber: 2.1  Consensus size: 24

       1004 CTCCATTCAA

                     *              
       1014 TCGTAGACGTAGCCCTTCTCCAAT
          1 TCGTAGACGGAGCCCTTCTCCAAT

                  *       *         
       1038 TCGTAGGCGGAGCCGTTCTCCAAT
          1 TCGTAGACGGAGCCCTTCTCCAAT

               
       1062 TCG
          1 TCG

       1065 CAGGCCTCTT


Statistics
Matches: 24,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  24   24  1.00

ACGTcount: A:0.18, C:0.31, G:0.24, T:0.27


Consensus pattern (24 bp):   
TCGTAGACGGAGCCCTTCTCCAAT

Found at i:1069 original size:24 final size:24

Alignment explanation


    Indices: 1024--1069  Score: 74
    Period size: 24  Copynumber: 1.9  Consensus size: 24

       1014 TCGTAGACGT

                             *      
       1024 AGCCCTTCTCCAATTCGTAGGCGG
          1 AGCCCTTCTCCAATTCGCAGGCGG

                *                 
       1048 AGCCGTTCTCCAATTCGCAGGC
          1 AGCCCTTCTCCAATTCGCAGGC

       1070 CTCTTCGTTC


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  24   20  1.00

ACGTcount: A:0.17, C:0.35, G:0.24, T:0.24


Consensus pattern (24 bp):   
AGCCCTTCTCCAATTCGCAGGCGG
Done.