Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2943

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: 5613
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31


Found at i:700 original size:28 final size:28

Alignment explanation


    Indices: 630--703  Score: 91
    Period size: 27  Copynumber: 2.7  Consensus size: 28

        620 ATTTACTCGA

                *                *      
        630 TAAAGTCGCACACTTAGTG-TTTAATAG
          1 TAAACTCGCACACTTAGTGCTATAATAG

                                        *
        657 TAAACTCG-ACACTTAGTGCTATACA-AT
          1 TAAACTCGCACACTTAGTGCTATA-ATAG

                                
        684 TAAACTCGCACACTTAGTGC
          1 TAAACTCGCACACTTAGTGC

        704 CAATCTCATT


Statistics
Matches: 41,  Mismatches: 3, Indels: 5
        0.84            0.06        0.10

Matches are distributed among these distances:
  26   10  0.24
  27   19  0.46
  28   12  0.29

ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30


Consensus pattern (28 bp):   
TAAACTCGCACACTTAGTGCTATAATAG

Found at i:2465 original size:42 final size:42

Alignment explanation


    Indices: 2406--2485  Score: 151
    Period size: 42  Copynumber: 1.9  Consensus size: 42

       2396 CAACCGTTCG

                                                      
       2406 GATATTTCATACGGCCCAATGAAACTCGGACTCAATTTGCCC
          1 GATATTTCATACGGCCCAATGAAACTCGGACTCAATTTGCCC

                                   *              
       2448 GATATTTCATACGGCCCAATGAACCTCGGACTCAATTT
          1 GATATTTCATACGGCCCAATGAAACTCGGACTCAATTT

       2486 TCCCTTACGG


Statistics
Matches: 37,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  42   37  1.00

ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28


Consensus pattern (42 bp):   
GATATTTCATACGGCCCAATGAAACTCGGACTCAATTTGCCC
Done.