Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_19480

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: 2970
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30


Found at i:2871 original size:99 final size:102

Alignment explanation


    Indices: 2736--2932  Score: 310
    Period size: 102  Copynumber: 2.0  Consensus size: 102

       2726 TGGCTGAACC

                                                                        *    
       2736 ATTGAATCAAGATTCTGAAGTGGCTGAAAACAAGGAGG-C-T-ATTGTCAATGATTCTCTTACAG
          1 ATTGAATCAAGATTCTGAAGTGGCTGAAAACAAGGAGGCCATCATTGTCAATGATTCTCTGACAG

                   **       *                    
       2798 AATTATCTGAGCAACCGGCAGCAAAGAGGATGCAACA
         66 AATTATCCCAGCAACCAGCAGCAAAGAGGATGCAACA

                                                                         **  
       2835 ATTGAATCAAGATTCTGAAGTGGCTGAAAACAAGGAGGCCATCATTGTCAATGATTCTCTGGGAG
          1 ATTGAATCAAGATTCTGAAGTGGCTGAAAACAAGGAGGCCATCATTGTCAATGATTCTCTGACAG

             *                               
       2900 AGTTATCCCAGCAACCAGCAGCAAAGAGGATGC
         66 AATTATCCCAGCAACCAGCAGCAAAGAGGATGC

       2933 GGCTTACGCC


Statistics
Matches: 88,  Mismatches: 7, Indels: 3
        0.90            0.07        0.03

Matches are distributed among these distances:
  99   38  0.43
 100    1  0.01
 101    1  0.01
 102   48  0.55

ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22


Consensus pattern (102 bp):   
ATTGAATCAAGATTCTGAAGTGGCTGAAAACAAGGAGGCCATCATTGTCAATGATTCTCTGACAG
AATTATCCCAGCAACCAGCAGCAAAGAGGATGCAACA

Done.