Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold6819.1

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: 9547
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32


Found at i:2538 original size:15 final size:15

Alignment explanation


    Indices: 2518--2572  Score: 69
    Period size: 15  Copynumber: 3.8  Consensus size: 15

       2508 ACTCTCATCA

                     *     
       2518 TTCTTTTCTTTCTTT
          1 TTCTTTTCTCTCTTT

                    *      
       2533 TTCTTTTCACTCTTT
          1 TTCTTTTCTCTCTTT

              *            
       2548 TTGTTTT-TCTCTTT
          1 TTCTTTTCTCTCTTT

                        
       2562 TTCTTTT-TCTC
          1 TTCTTTTCTCTC

       2573 GCTCAATAGG


Statistics
Matches: 35,  Mismatches: 5, Indels: 1
        0.85            0.12        0.02

Matches are distributed among these distances:
  14   16  0.46
  15   19  0.54

ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75


Consensus pattern (15 bp):   
TTCTTTTCTCTCTTT

Found at i:8716 original size:11 final size:11

Alignment explanation


    Indices: 8700--8729  Score: 60
    Period size: 11  Copynumber: 2.7  Consensus size: 11

       8690 GTAGATTCAA

                       
       8700 AAAAAAAATCG
          1 AAAAAAAATCG

                       
       8711 AAAAAAAATCG
          1 AAAAAAAATCG

                    
       8722 AAAAAAAA
          1 AAAAAAAA

       8730 ATTTGAAAAA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   19  1.00

ACGTcount: A:0.80, C:0.07, G:0.07, T:0.07


Consensus pattern (11 bp):   
AAAAAAAATCG

Found at i:8757 original size:13 final size:13

Alignment explanation


    Indices: 8694--8758  Score: 82
    Period size: 13  Copynumber: 5.2  Consensus size: 13

       8684 TAAATTGTAG

                         
       8694 ATTC-AAAAAAAA
          1 ATTCGAAAAAAAA

             *           
       8706 AATCG-AAAAAAA
          1 ATTCGAAAAAAAA

                         
       8718 A-TCGAAAAAAAA
          1 ATTCGAAAAAAAA

               *         
       8730 ATTTGAAAAAAAA
          1 ATTCGAAAAAAAA

               *         
       8743 ATTTGAAAAAAAA
          1 ATTCGAAAAAAAA

               
       8756 ATT
          1 ATT

       8759 GTATACGGTC


Statistics
Matches: 48,  Mismatches: 2, Indels: 5
        0.87            0.04        0.09

Matches are distributed among these distances:
  11    3  0.06
  12   19  0.40
  13   26  0.54

ACGTcount: A:0.71, C:0.05, G:0.06, T:0.18


Consensus pattern (13 bp):   
ATTCGAAAAAAAA
Done.