Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_15701

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: 1701
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25


Found at i:1408 original size:6 final size:6

Alignment explanation


    Indices: 1399--1425  Score: 54
    Period size: 6  Copynumber: 4.5  Consensus size: 6

       1389 TCCCATGGCC

                                           
       1399 ATGGGA ATGGGA ATGGGA ATGGGA ATG
          1 ATGGGA ATGGGA ATGGGA ATGGGA ATG

       1426 CAAATGGGTC


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   21  1.00

ACGTcount: A:0.33, C:0.00, G:0.48, T:0.19


Consensus pattern (6 bp):   
ATGGGA

Found at i:1431 original size:18 final size:18

Alignment explanation


    Indices: 1399--1433  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

       1389 TCCCATGGCC

                     **       
       1399 ATGGGAATGGGAATGGGA
          1 ATGGGAATGCAAATGGGA

                             
       1417 ATGGGAATGCAAATGGG
          1 ATGGGAATGCAAATGGG

       1434 TCTAGGCTGC


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  18   15  1.00

ACGTcount: A:0.34, C:0.03, G:0.46, T:0.17


Consensus pattern (18 bp):   
ATGGGAATGCAAATGGGA
Done.