Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold3784

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, 395

Length: 659
ACGTcount: A:0.52, C:0.24, G:0.01, T:0.23


Found at i:362 original size:14 final size:14

Alignment explanation


    Indices: 345--410  Score: 50
    Period size: 14  Copynumber: 4.9  Consensus size: 14

        335 CAATTAAATT

                          
        345 CTAAACACTAAACC
          1 CTAAACACTAAACC

                  *       
        359 CTAAACCCTAAA--
          1 CTAAACACTAAACC

                            
        371 CTAAA-ACTACAAACC
          1 CTAAACACT--AAACC

            *   *       * 
        386 TTAAGCA-TAAAAC
          1 CTAAACACTAAACC

                        
        399 CTAAACACTAAA
          1 CTAAACACTAAA

        411 TCTAAACTTG


Statistics
Matches: 39,  Mismatches: 7, Indels: 12
        0.67            0.12        0.21

Matches are distributed among these distances:
  11    2  0.05
  12    5  0.13
  13   12  0.31
  14   15  0.38
  15    4  0.10
  16    1  0.03

ACGTcount: A:0.53, C:0.29, G:0.02, T:0.17


Consensus pattern (14 bp):   
CTAAACACTAAACC

Found at i:491 original size:19 final size:20

Alignment explanation


    Indices: 469--509  Score: 66
    Period size: 19  Copynumber: 2.1  Consensus size: 20

        459 CTTAAAACTA

                        *       
        469 AAACCCTAAACATAAA-CAT
          1 AAACCCTAAACACAAATCAT

                                
        488 AAACCCTAAACACAAATCAT
          1 AAACCCTAAACACAAATCAT

              
        508 AA
          1 AA

        510 CATTAATCCC


Statistics
Matches: 20,  Mismatches: 1, Indels: 1
        0.91            0.05        0.05

Matches are distributed among these distances:
  19   15  0.75
  20    5  0.25

ACGTcount: A:0.59, C:0.27, G:0.00, T:0.15


Consensus pattern (20 bp):   
AAACCCTAAACACAAATCAT
Done.