Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold813

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: 13249
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31


Found at i:8417 original size:30 final size:31

Alignment explanation


    Indices: 8383--8448  Score: 107
    Period size: 31  Copynumber: 2.2  Consensus size: 31

       8373 CTATTTATGT

                 *             *           
       8383 AGGTTGGCCGAATGTGG-GGTTCATTTAGCA
          1 AGGTTAGCCGAATGTGGAGATTCATTTAGCA

                                           
       8413 AGGTTAGCCGAATGTGGAGATTCATTTAGCA
          1 AGGTTAGCCGAATGTGGAGATTCATTTAGCA

                 
       8444 AGGTT
          1 AGGTT

       8449 CATGCATGAT


Statistics
Matches: 33,  Mismatches: 2, Indels: 1
        0.92            0.06        0.03

Matches are distributed among these distances:
  30   16  0.48
  31   17  0.52

ACGTcount: A:0.24, C:0.12, G:0.33, T:0.30


Consensus pattern (31 bp):   
AGGTTAGCCGAATGTGGAGATTCATTTAGCA

Found at i:11692 original size:23 final size:24

Alignment explanation


    Indices: 11651--11695  Score: 65
    Period size: 23  Copynumber: 1.9  Consensus size: 24

      11641 TCTGAACAAA

                                    
      11651 TTAAATCAAAGTTTAAATGTGTTC
          1 TTAAATCAAAGTTTAAATGTGTTC

                     *    *       
      11675 TTAAAT-AATGTTTTAATGTGT
          1 TTAAATCAAAGTTTAAATGTGT

      11696 CAAGCTAAGG


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  23   13  0.68
  24    6  0.32

ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47


Consensus pattern (24 bp):   
TTAAATCAAAGTTTAAATGTGTTC
Done.