Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_21745

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: 2235
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25


Found at i:400 original size:3 final size:3

Alignment explanation


    Indices: 392--423  Score: 64
    Period size: 3  Copynumber: 10.7  Consensus size: 3

        382 GTAAGAGAAG

                                                      
        392 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
          1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG

        424 AAACAACAAC


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   29  1.00

ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00


Consensus pattern (3 bp):   
AGC

Found at i:448 original size:18 final size:18

Alignment explanation


    Indices: 425--463  Score: 60
    Period size: 18  Copynumber: 2.2  Consensus size: 18

        415 CAGCAGCAGA

                              
        425 AACAACAACACCAACACC
          1 AACAACAACACCAACACC

                   *        * 
        443 AACAACACCACCAACATC
          1 AACAACAACACCAACACC

               
        461 AAC
          1 AAC

        464 CACCACCACC


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  18   19  1.00

ACGTcount: A:0.54, C:0.44, G:0.00, T:0.03


Consensus pattern (18 bp):   
AACAACAACACCAACACC
Done.