Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_14566

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: 2445
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25


Found at i:467 original size:9 final size:9

Alignment explanation


    Indices: 453--480  Score: 56
    Period size: 9  Copynumber: 3.1  Consensus size: 9

        443 CACATTCACC

                     
        453 GGGTAAAAA
          1 GGGTAAAAA

                     
        462 GGGTAAAAA
          1 GGGTAAAAA

                     
        471 GGGTAAAAA
          1 GGGTAAAAA

             
        480 G
          1 G

        481 AAGAGTCTCA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   19  1.00

ACGTcount: A:0.54, C:0.00, G:0.36, T:0.11


Consensus pattern (9 bp):   
GGGTAAAAA

Found at i:844 original size:15 final size:15

Alignment explanation


    Indices: 826--869  Score: 52
    Period size: 15  Copynumber: 2.9  Consensus size: 15

        816 TCCTGGAAGA

                 *         
        826 CCAGCTCCTCCTCCT
          1 CCAGCACCTCCTCCT

                    *      
        841 CCAGCACCACCTCCT
          1 CCAGCACCTCCTCCT

            * *           
        856 GCTGCACCTCCTCC
          1 CCAGCACCTCCTCC

        870 CAAAGCAGCA


Statistics
Matches: 24,  Mismatches: 5, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  15   24  1.00

ACGTcount: A:0.11, C:0.59, G:0.09, T:0.20


Consensus pattern (15 bp):   
CCAGCACCTCCTCCT
Done.