Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_25840

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: 1776
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22


Found at i:493 original size:54 final size:54

Alignment explanation


    Indices: 408--532  Score: 207
    Period size: 54  Copynumber: 2.3  Consensus size: 54

        398 AAGTCGAAAC

                                                                 * 
        408 TGAAGCACCCGCACCCGTTGAAGTCAAGGAAGAAGAGAAGGCCGACCCA-CTGGT
          1 TGAAGCACCCGCACCCGTTGAAGTCAAGGAAGAAGAGAAGGCCGACCCACCT-AT

                                      *                  *        
        462 TGAAGCACCCGCACCCGTTGAAGTCAGGGAAGAAGAGAAGGCCGATCCACCTAT
          1 TGAAGCACCCGCACCCGTTGAAGTCAAGGAAGAAGAGAAGGCCGACCCACCTAT

                             
        516 TGAAGCACCCGCACCCG
          1 TGAAGCACCCGCACCCG

        533 AGACCGTGGT


Statistics
Matches: 67,  Mismatches: 3, Indels: 2
        0.93            0.04        0.03

Matches are distributed among these distances:
  54   65  0.97
  55    2  0.03

ACGTcount: A:0.30, C:0.30, G:0.28, T:0.11


Consensus pattern (54 bp):   
TGAAGCACCCGCACCCGTTGAAGTCAAGGAAGAAGAGAAGGCCGACCCACCTAT
Done.