Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold828

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: 5690
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.30

Warning! 414 characters in sequence are not A, C, G, or T


Found at i:713 original size:10 final size:10

Alignment explanation


    Indices: 697--735  Score: 62
    Period size: 10  Copynumber: 3.9  Consensus size: 10

        687 GCCTCTCCTT

                      
        697 TTTCTTTTT-
          1 TTTCTTTTTC

                       
        706 TTTCCTTTTTC
          1 TTT-CTTTTTC

                      
        717 TTTCTTTTTC
          1 TTTCTTTTTC

                     
        727 TTTCTTTTT
          1 TTTCTTTTT

        736 GTTTTTGAAA


Statistics
Matches: 28,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
   9    3  0.11
  10   22  0.79
  11    3  0.11

ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82


Consensus pattern (10 bp):   
TTTCTTTTTC

Found at i:713 original size:16 final size:17

Alignment explanation


    Indices: 692--726  Score: 63
    Period size: 16  Copynumber: 2.1  Consensus size: 17

        682 TCTTGGCCTC

                             
        692 TCCTTTTTCTTT-TTTT
          1 TCCTTTTTCTTTCTTTT

                             
        708 TCCTTTTTCTTTCTTTT
          1 TCCTTTTTCTTTCTTTT

              
        725 TC
          1 TC

        727 TTTCTTTTTG


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  16   12  0.67
  17    6  0.33

ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77


Consensus pattern (17 bp):   
TCCTTTTTCTTTCTTTT

Found at i:4861 original size:10 final size:10

Alignment explanation


    Indices: 4840--4869  Score: 51
    Period size: 10  Copynumber: 2.9  Consensus size: 10

       4830 CGACATGTAA

                       
       4840 AATATCAAATG
          1 AATAT-AAATG

                      
       4851 AATATAAATG
          1 AATATAAATG

                     
       4861 AATATAAAT
          1 AATATAAAT

       4870 AGGTGATATG


Statistics
Matches: 19,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  10   14  0.74
  11    5  0.26

ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30


Consensus pattern (10 bp):   
AATATAAATG
Done.