Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1240

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: 4211
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36


Found at i:1085 original size:25 final size:24

Alignment explanation


    Indices: 1043--1093  Score: 75
    Period size: 25  Copynumber: 2.1  Consensus size: 24

       1033 AAAAAGAATC

                   *     *          
       1043 TTTATTATTTATCGTTTTATTTAA
          1 TTTATTAATTATCCTTTTATTTAA

                                     
       1067 TTTATTTAATTATCCTTTTATTTAA
          1 TTTA-TTAATTATCCTTTTATTTAA

              
       1092 TT
          1 TT

       1094 AGTCGTCAAC


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

Matches are distributed among these distances:
  24    4  0.17
  25   20  0.83

ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67


Consensus pattern (24 bp):   
TTTATTAATTATCCTTTTATTTAA

Found at i:1629 original size:19 final size:19

Alignment explanation


    Indices: 1605--1641  Score: 74
    Period size: 19  Copynumber: 1.9  Consensus size: 19

       1595 TAATATTATA

                               
       1605 AATTGAATATTATAAAAAG
          1 AATTGAATATTATAAAAAG

                              
       1624 AATTGAATATTATAAAAA
          1 AATTGAATATTATAAAAA

       1642 TAACAAATTA


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   18  1.00

ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32


Consensus pattern (19 bp):   
AATTGAATATTATAAAAAG
Done.