Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold620

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: 17013
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.18

Warning! 6986 characters in sequence are not A, C, G, or T


Found at i:2129 original size:18 final size:18

Alignment explanation


    Indices: 2091--2132  Score: 57
    Period size: 18  Copynumber: 2.3  Consensus size: 18

       2081 AAATCGAAAG

                        *  ** 
       2091 AAAAGAAAAAGAGATTGA
          1 AAAAGAAAAAGAAATCAA

                              
       2109 AAAAGAAAAAGAAATCAA
          1 AAAAGAAAAAGAAATCAA

                  
       2127 AAAAGA
          1 AAAAGA

       2133 GAGTGAGGTC


Statistics
Matches: 21,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  18   21  1.00

ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07


Consensus pattern (18 bp):   
AAAAGAAAAAGAAATCAA

Found at i:4617 original size:30 final size:32

Alignment explanation


    Indices: 4562--4631  Score: 83
    Period size: 31  Copynumber: 2.2  Consensus size: 32

       4552 AAATGTTCCC

                             *        *     
       4562 TTCACACACTAAGGCCTTTCAATTTCGTGT-G
          1 TTCACACACTAAGGCCTATCAATTTCCTGTAG

                                         *   
       4593 TTCACACAC-AAGGCCTGATC-ATTTCCTTTAG
          1 TTCACACACTAAGGCCT-ATCAATTTCCTGTAG

                    
       4624 TTCACACA
          1 TTCACACA

       4632 TAGAAACGGT


Statistics
Matches: 34,  Mismatches: 3, Indels: 4
        0.83            0.07        0.10

Matches are distributed among these distances:
  30   14  0.41
  31   20  0.59

ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33


Consensus pattern (32 bp):   
TTCACACACTAAGGCCTATCAATTTCCTGTAG

Done.