Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1183

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: 14216
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35


Found at i:511 original size:27 final size:27

Alignment explanation


    Indices: 461--512  Score: 70
    Period size: 27  Copynumber: 1.9  Consensus size: 27

        451 TAATCTTGTA

                 *           *         
        461 ATTTTTCCACTTGGTCAGCAAACTTCT
          1 ATTTTACCACTTGGTCAACAAACTTCT

                                      
        488 ATTTTACCACTTGGT-AACATAACTT
          1 ATTTTACCACTTGGTCAACA-AACTT

        513 TAGATTGTAT


Statistics
Matches: 22,  Mismatches: 2, Indels: 2
        0.85            0.08        0.08

Matches are distributed among these distances:
  26    3  0.14
  27   19  0.86

ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40


Consensus pattern (27 bp):   
ATTTTACCACTTGGTCAACAAACTTCT

Found at i:12014 original size:23 final size:23

Alignment explanation


    Indices: 11979--12040  Score: 88
    Period size: 23  Copynumber: 2.7  Consensus size: 23

      11969 TAGTTAAAAC

                 *  *              
      11979 CAATGAATTGGTCAAAAACCAAT
          1 CAATGTATCGGTCAAAAACCAAT

                                   
      12002 CAATGTATCGGTCAAAAACCAAT
          1 CAATGTATCGGTCAAAAACCAAT

               *     *      
      12025 CAACGTATCAGTCAAA
          1 CAATGTATCGGTCAAA

      12041 TCTAATTTGA


Statistics
Matches: 35,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  23   35  1.00

ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21


Consensus pattern (23 bp):   
CAATGTATCGGTCAAAAACCAAT
Done.