Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_39451

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, 200

Length: 216
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34


Found at i:117 original size:18 final size:18

Alignment explanation


    Indices: 86--120  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

         76 CCCAAGGTTA

                    **        
         86 TTAATGATTTTGATGATC
          1 TTAATGATGATGATGATC

                             
        104 TTAATGATGATGATGAT
          1 TTAATGATGATGATGAT

        121 GTTGATACTG


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  18   15  1.00

ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46


Consensus pattern (18 bp):   
TTAATGATGATGATGATC

Found at i:132 original size:18 final size:17

Alignment explanation


    Indices: 111--153  Score: 59
    Period size: 18  Copynumber: 2.4  Consensus size: 17

        101 ATCTTAATGA

                              
        111 TGATGATGATGTTGATAC
          1 TGATGATGATGTTGAT-C

                 *           
        129 TGATGTTGATGTTGATC
          1 TGATGATGATGTTGATC

                    
        146 TCGATGAT
          1 T-GATGAT

        154 TATACCCTTG


Statistics
Matches: 22,  Mismatches: 2, Indels: 2
        0.85            0.08        0.08

Matches are distributed among these distances:
  17    2  0.09
  18   20  0.91

ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42


Consensus pattern (17 bp):   
TGATGATGATGTTGATC
Done.