Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1522

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, 966

Length: 1610
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30

Warning! 17 characters in sequence are not A, C, G, or T


Found at i:406 original size:14 final size:13

Alignment explanation


    Indices: 370--417  Score: 51
    Period size: 14  Copynumber: 3.5  Consensus size: 13

        360 GTTCAGATTC

                         
        370 AAAAAAAAAACAA
          1 AAAAAAAAAACAA

                 *        
        383 ACAAACAAAAACAA
          1 A-AAAAAAAAACAA

                      **  
        397 AAACAAAAAATGAA
          1 AAA-AAAAAAACAA

                   
        411 AAAAAAA
          1 AAAAAAA

        418 GGAAAAATGG


Statistics
Matches: 29,  Mismatches: 4, Indels: 4
        0.78            0.11        0.11

Matches are distributed among these distances:
  13    7  0.24
  14   22  0.76

ACGTcount: A:0.85, C:0.10, G:0.02, T:0.02


Consensus pattern (13 bp):   
AAAAAAAAAACAA

Found at i:412 original size:20 final size:19

Alignment explanation


    Indices: 369--417  Score: 64
    Period size: 20  Copynumber: 2.5  Consensus size: 19

        359 AGTTCAGATT

                               
        369 CAAAAAAAAAACAAACAAA
          1 CAAAAAAAAAACAAACAAA

                                
        388 CAAAAACAAAAACAAA-AAA
          1 CAAAAA-AAAAACAAACAAA

             *         
        407 TGAAAAAAAAA
          1 -CAAAAAAAAA

        418 GGAAAAATGG


Statistics
Matches: 27,  Mismatches: 1, Indels: 4
        0.84            0.03        0.12

Matches are distributed among these distances:
  19   13  0.48
  20   14  0.52

ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02


Consensus pattern (19 bp):   
CAAAAAAAAAACAAACAAA
Done.