Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_08529

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: 1905
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22


Found at i:1203 original size:18 final size:18

Alignment explanation


    Indices: 1180--1248  Score: 56
    Period size: 18  Copynumber: 4.0  Consensus size: 18

       1170 TCCTCAAATG

                              
       1180 CAGCAGCCACAGCAACAT
          1 CAGCAGCCACAGCAACAT

                               
       1198 CAGCAG-CAGCAGC-A-A-
          1 CAGCAGCCA-CAGCAACAT

                 * *  *      *
       1213 CAGCAACTACTGCAACAA
          1 CAGCAGCCACAGCAACAT

                   *          
       1231 CAGCAGCTACAGCAACAT
          1 CAGCAGCCACAGCAACAT

       1249 GCTCAACAAC


Statistics
Matches: 40,  Mismatches: 6, Indels: 10
        0.71            0.11        0.18

Matches are distributed among these distances:
  15    8  0.20
  16    3  0.08
  17    4  0.10
  18   25  0.62

ACGTcount: A:0.41, C:0.35, G:0.17, T:0.07


Consensus pattern (18 bp):   
CAGCAGCCACAGCAACAT
Done.