Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_32511

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: 1887
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24


Found at i:1285 original size:108 final size:108

Alignment explanation


    Indices: 1090--1286  Score: 270
    Period size: 108  Copynumber: 1.8  Consensus size: 108

       1080 TTTTGGTGGT

                         *                     *                           * 
       1090 CAAACCAATCCTTTGACTCCTCAAATTCAGCACCAGCAGAACTTTCACGCGAATGGAACTGCAGC
          1 CAAACCAATCCTTGGACTCCTCAAATTCAGCACCAACAGAACTTTCACGCGAATGGAACTGCACC

                *           **                         
       1155 AAACGTGGGATCACCTGGATATGACATACATGGTCTGACTGGA
         66 AAACATGGGATCACCTCAATATGACATACATGGTCTGACTGGA

                  *           *     *       *               * *              
       1198 CAAACCGATCCTTGGACTTCTCAATTTCAGCAGCAACAGAA-TTTCCATGTGAATGGAACTGCAC
          1 CAAACCAATCCTTGGACTCCTCAAATTCAGCACCAACAGAACTTT-CACGCGAATGGAACTGCAC

                                     
       1262 CAAACATGGGATCACCTCAATATGA
         65 CAAACATGGGATCACCTCAATATGA

       1287 GAAGTCATAT


Statistics
Matches: 76,  Mismatches: 12, Indels: 2
        0.84            0.13        0.02

Matches are distributed among these distances:
 107    3  0.04
 108   73  0.96

ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22


Consensus pattern (108 bp):   
CAAACCAATCCTTGGACTCCTCAAATTCAGCACCAACAGAACTTTCACGCGAATGGAACTGCACC
AAACATGGGATCACCTCAATATGACATACATGGTCTGACTGGA
Done.