Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_23507

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, 672

Length: 1121
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21


Found at i:77 original size:6 final size:6

Alignment explanation


    Indices: 70--110  Score: 73
    Period size: 6  Copynumber: 6.8  Consensus size: 6

         60 CCAACAGAAA

                 *                                         
         70 CAACAA CAACAG CAACAG CAACAG CAACAG CAACAG CAACA
          1 CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACA

        111 AATGCTTCTC


Statistics
Matches: 34,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
   6   34  1.00

ACGTcount: A:0.54, C:0.34, G:0.12, T:0.00


Consensus pattern (6 bp):   
CAACAG

Found at i:333 original size:21 final size:21

Alignment explanation


    Indices: 307--346  Score: 64
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        297 CACTCCTAAT

                                  
        307 TCACAA-CAACAGCAACAGCCC
          1 TCACAATC-ACAGCAACAGCCC

                               
        328 TCACAATCACAGCAACAGC
          1 TCACAATCACAGCAACAGC

        347 AACAGCAACA


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  21   17  0.94
  22    1  0.06

ACGTcount: A:0.42, C:0.40, G:0.10, T:0.07


Consensus pattern (21 bp):   
TCACAATCACAGCAACAGCCC
Done.