Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_00036

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, 457

Length: 762
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29


Found at i:570 original size:84 final size:84

Alignment explanation


    Indices: 406--606  Score: 221
    Period size: 84  Copynumber: 2.4  Consensus size: 84

        396 TGAAGAAGAA

                                               *                 **          
        406 GAAGAAGAAAAAGGGTTGTTCGAAGTGAAAGAAGTGATAACATCGGAAGCCGAGTCCGGAGAGGA
          1 GAAGAAGAAAAAGGGTTGTTCGAAGTGAAAGAAGTCATAACATCGGAAGCCGACCCCGGAGAGGA

                            *  
        471 AGAACAAACACGTGAAGTT
         66 AGAACAAACACGTGAAATT

                     *      *                                  *             
        490 GAAGAAGAAGAAGGGTCGTTCGAAGTGAAAGACA-TCATAACATC-GAAGGTCGACCCCTTGGA-
          1 GAAGAAGAAAAAGGGTTGTTCGAAGTGAAAGA-AGTCATAACATCGGAA-GCCGACCCC--GGAG

                *    *    *        
        552 A-GAGGAACGAACATGTGAAATT
         62 AGGAAGAACAAACACGTGAAATT

            *                 *        *     
        574 AAAGAAGAAAAAGGGTTGATCGAAGTGCAAGAA
          1 GAAGAAGAAAAAGGGTTGTTCGAAGTGAAAGAA

        607 ACGAAAACAT


Statistics
Matches: 98,  Mismatches: 15, Indels: 9
        0.80            0.12        0.07

Matches are distributed among these distances:
  83    4  0.04
  84   89  0.91
  85    2  0.02
  86    3  0.03

ACGTcount: A:0.42, C:0.12, G:0.30, T:0.15


Consensus pattern (84 bp):   
GAAGAAGAAAAAGGGTTGTTCGAAGTGAAAGAAGTCATAACATCGGAAGCCGACCCCGGAGAGGA
AGAACAAACACGTGAAATT

Done.