Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_24304

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: 2157
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28


Found at i:1874 original size:3 final size:3

Alignment explanation


    Indices: 1868--1904  Score: 74
    Period size: 3  Copynumber: 12.3  Consensus size: 3

       1858 CCAAAGGAGG

                                                             
       1868 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
          1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A

       1905 AGGGATGGAA


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   34  1.00

ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00


Consensus pattern (3 bp):   
AGA

Found at i:1983 original size:6 final size:6

Alignment explanation


    Indices: 1972--1997  Score: 52
    Period size: 6  Copynumber: 4.3  Consensus size: 6

       1962 ACTTAGTTCG

                                          
       1972 GATGAA GATGAA GATGAA GATGAA GA
          1 GATGAA GATGAA GATGAA GATGAA GA

       1998 AGATACTGCC


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   20  1.00

ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15


Consensus pattern (6 bp):   
GATGAA

Done.