Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_12984

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, 455

Length: 759
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.22


Found at i:387 original size:21 final size:19

Alignment explanation


    Indices: 355--395  Score: 55
    Period size: 21  Copynumber: 2.1  Consensus size: 19

        345 GCGAACAGAG

                               
        355 AAGGAAGTTATATCTGGTA
          1 AAGGAAGTTATATCTGGTA

                           *     
        374 AAGGACAGTTTATATGTGGTA
          1 AAGGA-AG-TTATATCTGGTA

             
        395 A
          1 A

        396 TAAGCACTGC


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  19    5  0.26
  20    2  0.11
  21   12  0.63

ACGTcount: A:0.37, C:0.05, G:0.27, T:0.32


Consensus pattern (19 bp):   
AAGGAAGTTATATCTGGTA

Found at i:551 original size:6 final size:6

Alignment explanation


    Indices: 540--569  Score: 60
    Period size: 6  Copynumber: 5.0  Consensus size: 6

        530 ACAAAAAACG

                                              
        540 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA
          1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA

        570 ATTTGACAGA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   24  1.00

ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00


Consensus pattern (6 bp):   
GAAGGA

Done.