Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_D_gene_10000614

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: 2934
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35


Found at i:917 original size:20 final size:21

Alignment explanation


    Indices: 875--919  Score: 56
    Period size: 20  Copynumber: 2.2  Consensus size: 21

        865 TGCTTTGTGA

                             **  
        875 TTTTCCCTCTATTTCTTTTTT
          1 TTTTCCCTCTATTTCTTACTT

                      *          
        896 TTTTCCC-CTTTTTCTTACTT
          1 TTTTCCCTCTATTTCTTACTT

                
        916 TTTT
          1 TTTT

        920 ATCAAGAGTA


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  20   14  0.67
  21    7  0.33

ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71


Consensus pattern (21 bp):   
TTTTCCCTCTATTTCTTACTT

Found at i:917 original size:21 final size:21

Alignment explanation


    Indices: 875--919  Score: 56
    Period size: 21  Copynumber: 2.1  Consensus size: 21

        865 TGCTTTGTGA

                             *   
        875 TTTTCCCTCTATTTCTTTTTT
          1 TTTTCCCTCTATTTCTTCTTT

                      *           
        896 TTTTCCC-CTTTTTCTTACTTT
          1 TTTTCCCTCTATTTCTT-CTTT

               
        917 TTT
          1 TTT

        920 ATCAAGAGTA


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  20    8  0.38
  21   13  0.62

ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71


Consensus pattern (21 bp):   
TTTTCCCTCTATTTCTTCTTT
Done.