Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold7156.1

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: 8015
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32


Found at i:2790 original size:12 final size:12

Alignment explanation


    Indices: 2769--2806  Score: 58
    Period size: 12  Copynumber: 3.1  Consensus size: 12

       2759 AAAAAAAAAA

                 *      
       2769 TTTGATTTTTTT
          1 TTTGAATTTTTT

                         
       2781 TTTGAATTTTTTT
          1 TTTGAA-TTTTTT

                        
       2794 TTTGAATTTTTT
          1 TTTGAATTTTTT

             
       2806 T
          1 T

       2807 CAAATTTCCT


Statistics
Matches: 24,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  12   12  0.50
  13   12  0.50

ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79


Consensus pattern (12 bp):   
TTTGAATTTTTT

Found at i:2791 original size:13 final size:13

Alignment explanation


    Indices: 2769--2806  Score: 69
    Period size: 13  Copynumber: 3.0  Consensus size: 13

       2759 AAAAAAAAAA

                         
       2769 TTTG-ATTTTTTT
          1 TTTGAATTTTTTT

                         
       2781 TTTGAATTTTTTT
          1 TTTGAATTTTTTT

                         
       2794 TTTGAATTTTTTT
          1 TTTGAATTTTTTT

       2807 CAAATTTCCT


Statistics
Matches: 25,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  12    4  0.16
  13   21  0.84

ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79


Consensus pattern (13 bp):   
TTTGAATTTTTTT

Found at i:3613 original size:22 final size:22

Alignment explanation


    Indices: 3583--3626  Score: 79
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       3573 TTTGGTATTT

                                  
       3583 GGGAATTGGTACGAAATGGTAA
          1 GGGAATTGGTACGAAATGGTAA

                *                 
       3605 GGGATTTGGTACGAAATGGTAA
          1 GGGAATTGGTACGAAATGGTAA

       3627 TGGTTCAAAA


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

Matches are distributed among these distances:
  22   21  1.00

ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25


Consensus pattern (22 bp):   
GGGAATTGGTACGAAATGGTAA
Done.