Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1325

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: 2025
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35


Found at i:58 original size:22 final size:21

Alignment explanation


    Indices: 31--76  Score: 65
    Period size: 23  Copynumber: 2.1  Consensus size: 21

         21 ATTAAATATA

                *                  
         31 TAAAATAATAAAATAATACTTTT
          1 TAAATTAATAAAA-AATA-TTTT

                                 
         54 TAAATTAATAAAAAATATTTT
          1 TAAATTAATAAAAAATATTTT

              
         75 TA
          1 TA

         77 TTAATATCTA


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

Matches are distributed among these distances:
  21    6  0.27
  22    4  0.18
  23   12  0.55

ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41


Consensus pattern (21 bp):   
TAAATTAATAAAAAATATTTT

Found at i:81 original size:19 final size:22

Alignment explanation


    Indices: 36--82  Score: 64
    Period size: 23  Copynumber: 2.2  Consensus size: 22

         26 ATATATAAAA

                                   
         36 TAATAAAATAATACTTTTTAAAT
          1 TAATAAAATAATACTTTTT-AAT

                                  
         59 TAATAAAA-AATA-TTTTT-AT
          1 TAATAAAATAATACTTTTTAAT

                 
         78 TAATA
          1 TAATA

         83 TCTATATATT


Statistics
Matches: 24,  Mismatches: 0, Indels: 4
        0.86            0.00        0.14

Matches are distributed among these distances:
  19    7  0.29
  21    5  0.21
  22    4  0.17
  23    8  0.33

ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45


Consensus pattern (22 bp):   
TAATAAAATAATACTTTTTAAT
Done.