Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold3697

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, 409

Length: 683
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37


Found at i:495 original size:12 final size:11

Alignment explanation


    Indices: 478--519  Score: 50
    Period size: 10  Copynumber: 3.8  Consensus size: 11

        468 AATTTTTTTC

                       
        478 TTTTTTTCAAT
          1 TTTTTTTCAAT

                     * 
        489 TTTTTTT-ATT
          1 TTTTTTTCAAT

                        
        499 TTTTTTTCAAAT
          1 TTTTTTTC-AAT

                *    
        511 TTTTGTTCA
          1 TTTTTTTCA

        520 CGAGTCTACT


Statistics
Matches: 26,  Mismatches: 3, Indels: 4
        0.79            0.09        0.12

Matches are distributed among these distances:
  10    9  0.35
  11    8  0.31
  12    9  0.35

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


Consensus pattern (11 bp):   
TTTTTTTCAAT

Found at i:502 original size:21 final size:20

Alignment explanation


    Indices: 470--514  Score: 63
    Period size: 21  Copynumber: 2.2  Consensus size: 20

        460 CCGTATACAA

                              * 
        470 TTTTTTTCTTTTTTTCAATT
          1 TTTTTTTCTTTTTTTCAAAT

                    *            
        490 TTTTTTATTTTTTTTTCAAAT
          1 TTTTTT-TCTTTTTTTCAAAT

                
        511 TTTT
          1 TTTT

        515 GTTCACGAGT


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  20    6  0.27
  21   16  0.73

ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80


Consensus pattern (20 bp):   
TTTTTTTCTTTTTTTCAAAT
Done.