Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold3170

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: 34931
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31


Found at i:1696 original size:14 final size:15

Alignment explanation


    Indices: 1677--1709  Score: 59
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       1667 AGGTCATTTA

                           
       1677 GCCC-AACCAAACTG
          1 GCCCAAACCAAACTG

                           
       1691 GCCCAAACCAAACTG
          1 GCCCAAACCAAACTG

                
       1706 GCCC
          1 GCCC

       1710 GGGGTTGGAG


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

Matches are distributed among these distances:
  14    4  0.22
  15   14  0.78

ACGTcount: A:0.33, C:0.45, G:0.15, T:0.06


Consensus pattern (15 bp):   
GCCCAAACCAAACTG

Found at i:13941 original size:14 final size:14

Alignment explanation


    Indices: 13922--13953  Score: 64
    Period size: 14  Copynumber: 2.3  Consensus size: 14

      13912 AGGTCATTTA

                          
      13922 GCCCAACCAAACTG
          1 GCCCAACCAAACTG

                          
      13936 GCCCAACCAAACTG
          1 GCCCAACCAAACTG

                
      13950 GCCC
          1 GCCC

      13954 GGTGATTGGA


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

Matches are distributed among these distances:
  14   18  1.00

ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06


Consensus pattern (14 bp):   
GCCCAACCAAACTG

Found at i:19050 original size:14 final size:14

Alignment explanation


    Indices: 19031--19062  Score: 64
    Period size: 14  Copynumber: 2.3  Consensus size: 14

      19021 AGGTCATTTA

                          
      19031 GCCCAACCAAACTG
          1 GCCCAACCAAACTG

                          
      19045 GCCCAACCAAACTG
          1 GCCCAACCAAACTG

                
      19059 GCCC
          1 GCCC

      19063 GGTGATTGGA


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

Matches are distributed among these distances:
  14   18  1.00

ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06


Consensus pattern (14 bp):   
GCCCAACCAAACTG
Done.