Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_16301

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, 477

Length: 795
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27


Found at i:309 original size:15 final size:15

Alignment explanation


    Indices: 280--316  Score: 56
    Period size: 15  Copynumber: 2.5  Consensus size: 15

        270 TTCTTCTTCT

                     **    
        280 TCTTCTTCTTCCTCA
          1 TCTTCTTCTAACTCA

                           
        295 TCTTCTTCTAACTCA
          1 TCTTCTTCTAACTCA

                   
        310 TCTTCTT
          1 TCTTCTT

        317 GTTCCCAATC


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  15   20  1.00

ACGTcount: A:0.11, C:0.35, G:0.00, T:0.54


Consensus pattern (15 bp):   
TCTTCTTCTAACTCA

Found at i:316 original size:3 final size:3

Alignment explanation


    Indices: 266--303  Score: 58
    Period size: 3  Copynumber: 12.7  Consensus size: 3

        256 GACTCAACAG

                                             *   *            
        266 CTT CTT CTT CTT CTT CTT CTT CTT CCT CAT CTT CTT CT
          1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT

        304 AACTCATCTT


Statistics
Matches: 32,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
   3   32  1.00

ACGTcount: A:0.03, C:0.37, G:0.00, T:0.61


Consensus pattern (3 bp):   
CTT
Done.