Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold2190

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, 628

Length: 1047
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37


Found at i:408 original size:31 final size:29

Alignment explanation


    Indices: 338--394  Score: 87
    Period size: 29  Copynumber: 1.9  Consensus size: 29

        328 AAATTGAATT

                     *                    
        338 AAATCAATATTTTATATATAAAATTACACA
          1 AAATCAA-AATTTATATATAAAATTACACA

                *                      
        368 AAATTAAAATTTATATATAAAATTACA
          1 AAATCAAAATTTATATATAAAATTACA

        395 TTGAAAGTCA


Statistics
Matches: 25,  Mismatches: 2, Indels: 1
        0.89            0.07        0.04

Matches are distributed among these distances:
  29   19  0.76
  30    6  0.24

ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37


Consensus pattern (29 bp):   
AAATCAAAATTTATATATAAAATTACACA

Found at i:414 original size:31 final size:29

Alignment explanation


    Indices: 350--414  Score: 76
    Period size: 29  Copynumber: 2.2  Consensus size: 29

        340 ATCAATATTT

                                  *     *
        350 TATATATAAAATTACACAAAATTAAAATT
          1 TATATATAAAATTACACAAAATCAAAATC

                              *   *        
        379 TATATATAAAATTACATTGAAAGTCAAAATC
          1 TATATATAAAATTACA--CAAAATCAAAATC

                 
        410 TATAT
          1 TATAT

        415 CTAACTTTGA


Statistics
Matches: 30,  Mismatches: 4, Indels: 2
        0.83            0.11        0.06

Matches are distributed among these distances:
  29   16  0.53
  31   14  0.47

ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35


Consensus pattern (29 bp):   
TATATATAAAATTACACAAAATCAAAATC
Done.