Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1174

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: 2482
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31

Warning! 88 characters in sequence are not A, C, G, or T


Found at i:231 original size:11 final size:11

Alignment explanation


    Indices: 212--251  Score: 57
    Period size: 11  Copynumber: 3.7  Consensus size: 11

        202 TTCCAATTTT

                        
        212 TTTTCTTTTCGA
          1 TTTT-TTTTCGA

                       
        224 TTTTTTTT--A
          1 TTTTTTTTCGA

                       
        233 TTTTTTTTCGA
          1 TTTTTTTTCGA

                    
        244 TTTTTTTT
          1 TTTTTTTT

        252 TCTAAGCTAC


Statistics
Matches: 26,  Mismatches: 0, Indels: 5
        0.84            0.00        0.16

Matches are distributed among these distances:
   9    9  0.35
  11   13  0.50
  12    4  0.15

ACGTcount: A:0.07, C:0.07, G:0.05, T:0.80


Consensus pattern (11 bp):   
TTTTTTTTCGA

Found at i:231 original size:20 final size:19

Alignment explanation


    Indices: 208--252  Score: 72
    Period size: 20  Copynumber: 2.3  Consensus size: 19

        198 TTTTTTCCAA

                    *          
        208 TTTTTTTTCTTTTCGATTT
          1 TTTTTTTTTTTTTCGATTT

                                
        227 TTTTTATTTTTTTTCGATTT
          1 TTTTT-TTTTTTTTCGATTT

                  
        247 TTTTTT
          1 TTTTTT

        253 CTAAGCTACA


Statistics
Matches: 24,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  19    6  0.25
  20   18  0.75

ACGTcount: A:0.07, C:0.07, G:0.04, T:0.82


Consensus pattern (19 bp):   
TTTTTTTTTTTTTCGATTT
Done.