Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_32907

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: 5547
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30


Found at i:153 original size:6 final size:6

Alignment explanation


    Indices: 142--184  Score: 68
    Period size: 6  Copynumber: 7.2  Consensus size: 6

        132 AAGTGCTCGC

                 *      *                                     
        142 GATAGA GATAGA GATAGG GATAGG GATAGG GATAGG GATAGG G
          1 GATAGG GATAGG GATAGG GATAGG GATAGG GATAGG GATAGG G

        185 CAAATAGAGA


Statistics
Matches: 36,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
   6   36  1.00

ACGTcount: A:0.37, C:0.00, G:0.47, T:0.16


Consensus pattern (6 bp):   
GATAGG

Found at i:3165 original size:24 final size:24

Alignment explanation


    Indices: 3135--3189  Score: 67
    Period size: 24  Copynumber: 2.3  Consensus size: 24

       3125 CTGTGGAGAT

                   *      *          
       3135 TGATGATGCTT-TGGTGATTGAAGA
          1 TGATGATACTTCTGATGA-TGAAGA

                    *               
       3159 TGATGATATTTCTGATGATGAAGA
          1 TGATGATACTTCTGATGATGAAGA

                   
       3183 TGATGAT
          1 TGATGAT

       3190 CATGAAGACG


Statistics
Matches: 27,  Mismatches: 3, Indels: 2
        0.84            0.09        0.06

Matches are distributed among these distances:
  24   22  0.81
  25    5  0.19

ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38


Consensus pattern (24 bp):   
TGATGATACTTCTGATGATGAAGA
Done.