Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: evm.model.Scaffold60.303

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, 586

Length: 978
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23


Found at i:907 original size:3 final size:3

Alignment explanation


    Indices: 895--933  Score: 69
    Period size: 3  Copynumber: 13.0  Consensus size: 3

        885 GCAGCTAAAT

                  *                                            
        895 CAA CAG CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
          1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA

        934 ACACTGCAAA


Statistics
Matches: 34,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   3   34  1.00

ACGTcount: A:0.64, C:0.33, G:0.03, T:0.00


Consensus pattern (3 bp):   
CAA

Found at i:969 original size:9 final size:9

Alignment explanation


    Indices: 895--969  Score: 53
    Period size: 9  Copynumber: 8.0  Consensus size: 9

        885 GCAGCTAAAT

                     
        895 CAACAGCAA
          1 CAACAGCAA

                 *   
        904 CAACAACAA
          1 CAACAGCAA

                 *   
        913 CAACAACAA
          1 CAACAGCAA

                 *   
        922 CAACAACAA
          1 CAACAGCAA

                        
        931 CAAACACTGCAA
          1 C-AACA--GCAA

                  *  *
        943 -AATCACCAG
          1 CAA-CAGCAA

              *      
        952 CAGCAGCAA
          1 CAACAGCAA

                     
        961 CAACAGCAA
          1 CAACAGCAA

        970 ATGTCATGA


Statistics
Matches: 53,  Mismatches: 8, Indels: 10
        0.75            0.11        0.14

Matches are distributed among these distances:
   9   41  0.77
  10    7  0.13
  11    2  0.04
  12    3  0.06

ACGTcount: A:0.56, C:0.33, G:0.08, T:0.03


Consensus pattern (9 bp):   
CAACAGCAA
Done.