Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_31357

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, 298

Length: 498
ACGTcount: A:0.55, C:0.06, G:0.30, T:0.09


Found at i:488 original size:75 final size:74

Alignment explanation


    Indices: 318--488  Score: 179
    Period size: 72  Copynumber: 2.3  Consensus size: 74

        308 AAGGGATCAT

                      *      *                                               
        318 AGAAG-AAGGCGAAGAGAAAGATGAGAAGAAAAAGAAGAAGAAAGACAAGGAAGAGAAAGAGAAA
          1 AGAAGAAAGGTGAAGAGGAAGATGAGAAG-AAAAGAAGAAGAAAGACAAGGAAGAGAAAGAGAAA

              *       
        382 AATAAAGAAA
         65 AAGAAAGAAA

                 * *         *                                  * **  *      
        392 AGAAGCATGGT-ATAGAAGAAGATGAGAAG-AAA-AAGAAGAAAGACAAGGAGGTTAAGGAGAAA
          1 AGAAGAAAGGTGA-AGAGGAAGATGAGAAGAAAAGAAGAAGAAAGACAAGGAAGAGAAAGAGAAA

                      
        454 AAGAAAGAAA
         65 AAGAAAGAAA

                                     
        464 AGAAGTTGAAAGGTGAAGAGGAAGA
          1 AGAA---GAAAGGTGAAGAGGAAGA

        489 AAGACAATGA


Statistics
Matches: 79,  Mismatches: 12, Indels: 11
        0.77            0.12        0.11

Matches are distributed among these distances:
  72   39  0.49
  73    3  0.04
  74    6  0.08
  75   30  0.38
  76    1  0.01

ACGTcount: A:0.60, C:0.02, G:0.32, T:0.06


Consensus pattern (74 bp):   
AGAAGAAAGGTGAAGAGGAAGATGAGAAGAAAAGAAGAAGAAAGACAAGGAAGAGAAAGAGAAAA
AGAAAGAAA
Done.