Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_D_gene_10017944

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, 250

Length: 417
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30


Found at i:97 original size:15 final size:15

Alignment explanation


    Indices: 77--128  Score: 104
    Period size: 15  Copynumber: 3.5  Consensus size: 15

         67 CGGTTTAGGT

                           
         77 ATATCCCTAGGAGGG
          1 ATATCCCTAGGAGGG

                           
         92 ATATCCCTAGGAGGG
          1 ATATCCCTAGGAGGG

                           
        107 ATATCCCTAGGAGGG
          1 ATATCCCTAGGAGGG

                   
        122 ATATCCC
          1 ATATCCC

        129 GGTTGCGTAT


Statistics
Matches: 37,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   37  1.00

ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21


Consensus pattern (15 bp):   
ATATCCCTAGGAGGG

Found at i:141 original size:30 final size:29

Alignment explanation


    Indices: 60--143  Score: 98
    Period size: 30  Copynumber: 2.8  Consensus size: 29

         50 CTATTCTACA

                                           
         60 GATATCCCGGTTTAGGTATATCCCTAGGAGG
          1 GATATCCCGG-TT-GGTATATCCCTAGGAGG

                         *  *              
         91 GATATCCCTAGG-AGGGATATCCCTAGGAGG
          1 GATATCCC--GGTTGGTATATCCCTAGGAGG

                                   
        121 GATATCCCGGTTGCGTATATCCC
          1 GATATCCCGGTTG-GTATATCCC

        144 AATCCAAGGA


Statistics
Matches: 45,  Mismatches: 4, Indels: 9
        0.78            0.07        0.16

Matches are distributed among these distances:
  28    2  0.04
  29    1  0.02
  30   32  0.71
  31    8  0.18
  33    2  0.04

ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26


Consensus pattern (29 bp):   
GATATCCCGGTTGGTATATCCCTAGGAGG
Done.