Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_27242

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: 2004
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24


Found at i:163 original size:3 final size:3

Alignment explanation


    Indices: 155--205  Score: 50
    Period size: 3  Copynumber: 17.3  Consensus size: 3

        145 AGCAACCTCA

                             **                         **      *          
        155 ACC ACC ACC ACC AAG A-C ACC ACC ACC ACC ACC TTC ACC TCC ACC ACC
          1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC

                 
        202 ACC A
          1 ACC A

        206 ACAACCATGA


Statistics
Matches: 38,  Mismatches: 9, Indels: 2
        0.78            0.18        0.04

Matches are distributed among these distances:
   2    1  0.03
   3   37  0.97

ACGTcount: A:0.33, C:0.59, G:0.02, T:0.06


Consensus pattern (3 bp):   
ACC

Found at i:227 original size:3 final size:3

Alignment explanation


    Indices: 221--251  Score: 62
    Period size: 3  Copynumber: 10.3  Consensus size: 3

        211 CATGACGACG

                                                     
        221 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
          1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A

        252 AAACGACAGC


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   28  1.00

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


Consensus pattern (3 bp):   
ACA

Done.