Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold801

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: 6207
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28


Found at i:2593 original size:23 final size:23

Alignment explanation


    Indices: 2541--2594  Score: 65
    Period size: 24  Copynumber: 2.3  Consensus size: 23

       2531 CTTTTTTGAG

                *             *    
       2541 TAATTATTCTTTTATTCTTTTTC
          1 TAATCATTCTTTTATTCTATTTC

                                    
       2564 TACATCATTCTTTTATTC-ATTTC
          1 TA-ATCATTCTTTTATTCTATTTC

                    
       2587 ATAATCAT
          1 -TAATCAT

       2595 ATTTTGTTCA


Statistics
Matches: 27,  Mismatches: 2, Indels: 4
        0.82            0.06        0.12

Matches are distributed among these distances:
  23   11  0.41
  24   16  0.59

ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59


Consensus pattern (23 bp):   
TAATCATTCTTTTATTCTATTTC

Found at i:6124 original size:14 final size:13

Alignment explanation


    Indices: 6098--6133  Score: 54
    Period size: 14  Copynumber: 2.7  Consensus size: 13

       6088 TACTTTTCTT

                         
       6098 AAAAAAAAGAAAG
          1 AAAAAAAAGAAAG

               *          
       6111 AAAGAAAAGAAAAG
          1 AAAAAAAAG-AAAG

                     
       6125 AAAAAAAAG
          1 AAAAAAAAG

       6134 GGAAAGGAGA


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  13    8  0.40
  14   12  0.60

ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00


Consensus pattern (13 bp):   
AAAAAAAAGAAAG
Done.