Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_32834

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: 3823
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27


Found at i:2043 original size:6 final size:6

Alignment explanation


    Indices: 2032--2065  Score: 52
    Period size: 6  Copynumber: 5.8  Consensus size: 6

       2022 TGCAGTTCCT

                                        *           
       2032 CCCCTC CCCCT- CCCCTC CCCCTC TCCCTC CCCCT
          1 CCCCTC CCCCTC CCCCTC CCCCTC CCCCTC CCCCT

       2066 TCTCCATCTA


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
   5    5  0.20
   6   20  0.80

ACGTcount: A:0.00, C:0.79, G:0.00, T:0.21


Consensus pattern (6 bp):   
CCCCTC

Found at i:2059 original size:12 final size:11

Alignment explanation


    Indices: 2029--2065  Score: 65
    Period size: 11  Copynumber: 3.3  Consensus size: 11

       2019 TCTTGCAGTT

                       
       2029 CCTCCCCTCCC
          1 CCTCCCCTCCC

                       
       2040 CCTCCCCTCCC
          1 CCTCCCCTCCC

                        
       2051 CCTCTCCCTCCC
          1 CCTC-CCCTCCC

               
       2063 CCT
          1 CCT

       2066 TCTCCATCTA


Statistics
Matches: 25,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  11   15  0.60
  12   10  0.40

ACGTcount: A:0.00, C:0.78, G:0.00, T:0.22


Consensus pattern (11 bp):   
CCTCCCCTCCC
Done.