Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_31100

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: 5832
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30


Found at i:4541 original size:81 final size:81

Alignment explanation


    Indices: 4406--4557  Score: 279
    Period size: 81  Copynumber: 1.9  Consensus size: 81

       4396 ATTCTTCACC

                                                            *                
       4406 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGGCACCAATATGATTCAT
          1 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT

                            
       4471 CTAAAGTGCAGTCTAT
         66 CTAAAGTGCAGTCTAT

                                                                             
       4487 ATGCTGAAACTAATTA-CCCTGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCA
          1 ATGCTGAAACTAATTATCCC-GATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCA

                   
       4551 TCTAAAG
         65 TCTAAAG

       4558 GCAATGCGAC


Statistics
Matches: 69,  Mismatches: 1, Indels: 2
        0.96            0.01        0.03

Matches are distributed among these distances:
  80    3  0.04
  81   66  0.96

ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30


Consensus pattern (81 bp):   
ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
CTAAAGTGCAGTCTAT
Done.