Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2419

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: 3010
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37


Found at i:1818 original size:3 final size:3

Alignment explanation


    Indices: 1812--1841  Score: 51
    Period size: 3  Copynumber: 9.7  Consensus size: 3

       1802 CAATTTTTTT

                                                   
       1812 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TT
          1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT

       1842 GCGTCAGATT


Statistics
Matches: 26,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   3   23  0.88
   4    3  0.12

ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70


Consensus pattern (3 bp):   
TTA

Found at i:2197 original size:37 final size:37

Alignment explanation


    Indices: 2115--2194  Score: 99
    Period size: 38  Copynumber: 2.2  Consensus size: 37

       2105 AGAGTTTTTA

                               * *               
       2115 AATTTTATAAATAAAATTAGTTAAATAATACATATTT
          1 AATTTTATAAATAAAATTACTAAAATAATACATATTT

                       *                   **     
       2152 AGATTTTATAAGTAAAATTACTAAAAT-ATATTTATTT
          1 A-ATTTTATAAATAAAATTACTAAAATAATACATATTT

                  
       2189 AATTTT
          1 AATTTT

       2195 TATGATATAT


Statistics
Matches: 37,  Mismatches: 5, Indels: 3
        0.82            0.11        0.07

Matches are distributed among these distances:
  36    5  0.14
  37   10  0.27
  38   22  0.59

ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46


Consensus pattern (37 bp):   
AATTTTATAAATAAAATTACTAAAATAATACATATTT
Done.