Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_02031

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, 304

Length: 507
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23


Found at i:293 original size:21 final size:21

Alignment explanation


    Indices: 269--310  Score: 66
    Period size: 21  Copynumber: 2.0  Consensus size: 21

        259 ATCGTGAAAG

                 *               
        269 AAGGATTGGAGACGGCGGAGA
          1 AAGGACTGGAGACGGCGGAGA

                *                
        290 AAGGGCTGGAGACGGCGGAGA
          1 AAGGACTGGAGACGGCGGAGA

        311 GAGGGATCTT


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.31, C:0.12, G:0.50, T:0.07


Consensus pattern (21 bp):   
AAGGACTGGAGACGGCGGAGA

Found at i:315 original size:21 final size:21

Alignment explanation


    Indices: 275--315  Score: 73
    Period size: 21  Copynumber: 2.0  Consensus size: 21

        265 AAAGAAGGAT

                                 
        275 TGGAGACGGCGGAGAAAGGGC
          1 TGGAGACGGCGGAGAAAGGGC

                           *    
        296 TGGAGACGGCGGAGAGAGGG
          1 TGGAGACGGCGGAGAAAGGG

        316 ATCTTTACAG


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.27, C:0.12, G:0.56, T:0.05


Consensus pattern (21 bp):   
TGGAGACGGCGGAGAAAGGGC
Done.