Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_14788

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: 2331
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28


Found at i:396 original size:6 final size:6

Alignment explanation


    Indices: 378--424  Score: 67
    Period size: 6  Copynumber: 7.8  Consensus size: 6

        368 CTGAAGCAGT

                   *        *                         *           
        378 GGCTCC AGCTCC GGATCC GGCTCC GGCTCC GGCTCC AGCTCC GGCTC
          1 GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC GGCTC

        425 TGGTTTCGCT


Statistics
Matches: 35,  Mismatches: 6, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
   6   35  1.00

ACGTcount: A:0.06, C:0.47, G:0.30, T:0.17


Consensus pattern (6 bp):   
GGCTCC

Found at i:1894 original size:15 final size:15

Alignment explanation


    Indices: 1874--1909  Score: 72
    Period size: 15  Copynumber: 2.4  Consensus size: 15

       1864 GAGAGCTTGA

                           
       1874 AAGTGCGTACGCTTC
          1 AAGTGCGTACGCTTC

                           
       1889 AAGTGCGTACGCTTC
          1 AAGTGCGTACGCTTC

                  
       1904 AAGTGC
          1 AAGTGC

       1910 TTCCGACTTC


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   21  1.00

ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25


Consensus pattern (15 bp):   
AAGTGCGTACGCTTC
Done.