Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00975.F1

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: 1726
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37


Found at i:454 original size:7 final size:7

Alignment explanation


    Indices: 438--472  Score: 54
    Period size: 7  Copynumber: 5.1  Consensus size: 7

        428 ATCTGAGCCT

                 * 
        438 CCCCTGC
          1 CCCCTCC

                   
        445 CCCCTCC
          1 CCCCTCC

                   
        452 CCCCT-C
          1 CCCCTCC

                   
        458 CCCCTCC
          1 CCCCTCC

                   
        465 CCCCTCC
          1 CCCCTCC

             
        472 C
          1 C

        473 ATTTTTCTCT


Statistics
Matches: 26,  Mismatches: 1, Indels: 2
        0.90            0.03        0.07

Matches are distributed among these distances:
   6    6  0.23
   7   20  0.77

ACGTcount: A:0.00, C:0.83, G:0.03, T:0.14


Consensus pattern (7 bp):   
CCCCTCC

Found at i:460 original size:13 final size:13

Alignment explanation


    Indices: 438--472  Score: 61
    Period size: 13  Copynumber: 2.6  Consensus size: 13

        428 ATCTGAGCCT

                          
        438 CCCCTGCCCCCTCC
          1 CCCCT-CCCCCTCC

                         
        452 CCCCTCCCCCTCC
          1 CCCCTCCCCCTCC

                    
        465 CCCCTCCC
          1 CCCCTCCC

        473 ATTTTTCTCT


Statistics
Matches: 21,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  13   16  0.76
  14    5  0.24

ACGTcount: A:0.00, C:0.83, G:0.03, T:0.14


Consensus pattern (13 bp):   
CCCCTCCCCCTCC

Found at i:1164 original size:2 final size:2

Alignment explanation


    Indices: 1157--1186  Score: 51
    Period size: 2  Copynumber: 15.0  Consensus size: 2

       1147 ATGCATACAC

                                          *             
       1157 GT GT GT GT GT GT GT GT GT GT CT GT GT GT GT
          1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT

       1187 ATGCATATTT


Statistics
Matches: 26,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.00, C:0.03, G:0.47, T:0.50


Consensus pattern (2 bp):   
GT

Done.