Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1093

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: 26135
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31


Found at i:20069 original size:40 final size:40

Alignment explanation


    Indices: 19893--20115  Score: 236
    Period size: 40  Copynumber: 5.6  Consensus size: 40

      19883 TCCTCGTTCA

                          *  *     *    *      *    
      19893 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
          1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG

                          *              *          
      19932 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
          1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG

             *                                      
      19972 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
          1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG

                                        *  *       *
      20012 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
          1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG

              *                *      *  * *    *     
      20052 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
          1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG

              *              *      
      20092 AAAGCCTTCGGGACTTAGCCCGGA
          1 AATGCCTTCGGGACTTAACCCGGA

      20116 CAGCATTCAA


Statistics
Matches: 158,  Mismatches: 22, Indels: 7
        0.84            0.12        0.04

Matches are distributed among these distances:
  39   37  0.23
  40  113  0.72
  41    8  0.05

ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25


Consensus pattern (40 bp):   
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Done.