Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold3485

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: 2564
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31


Found at i:2357 original size:41 final size:41

Alignment explanation


    Indices: 2280--2439  Score: 170
    Period size: 39  Copynumber: 4.0  Consensus size: 41

       2270 TCGGGATTTA

                                                      
       2280 GCCGGAATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
          1 GCCGG-ATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC

                       *                   *          
       2322 TGCCGGATATAGCAACTCGC-CAAATGCCTTTGGGTCTTAGC
          1 -GCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC

                             *   *             * *    
       2363 -CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGC
          1 GCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC

                      *          *           *      
       2403 -CC-GATATAGCAA-TCGCACGAATGCCTTCGGATCTTAG
          1 GCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAG

       2440 TCCGGTTATC


Statistics
Matches: 99,  Mismatches: 15, Indels: 11
        0.79            0.12        0.09

Matches are distributed among these distances:
  38   20  0.20
  39   21  0.21
  40   20  0.20
  41   20  0.20
  42   13  0.13
  43    5  0.05

ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24


Consensus pattern (41 bp):   
GCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Done.