Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: evm.model.Scaffold103.183

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, 871

Length: 1452
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.24


Found at i:418 original size:9 final size:9

Alignment explanation


    Indices: 403--436  Score: 50
    Period size: 9  Copynumber: 3.8  Consensus size: 9

        393 TGGTCAGGTG

                     
        403 AGTCAACTC
          1 AGTCAACTC

              *      
        412 AGCCAACTC
          1 AGTCAACTC

            *        
        421 GGTCAACTC
          1 AGTCAACTC

                   
        430 AGTCAAC
          1 AGTCAAC

        437 AACATTATCA


Statistics
Matches: 21,  Mismatches: 4, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
   9   21  1.00

ACGTcount: A:0.32, C:0.35, G:0.15, T:0.18


Consensus pattern (9 bp):   
AGTCAACTC

Found at i:833 original size:33 final size:32

Alignment explanation


    Indices: 792--856  Score: 85
    Period size: 33  Copynumber: 2.0  Consensus size: 32

        782 ATATTAGTTG

                                *           
        792 GGCCGAGCCTACACGGACGAGCCAGATTAATC
          1 GGCCGAGCCTACACGGACGACCCAGATTAATC

                        **   *               
        824 GGCCTGAGCCTATTCGGGCGACCCAGATTAATC
          1 GGCC-GAGCCTACACGGACGACCCAGATTAATC

        857 AGACAGGAAC


Statistics
Matches: 28,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  32    4  0.14
  33   24  0.86

ACGTcount: A:0.25, C:0.31, G:0.28, T:0.17


Consensus pattern (32 bp):   
GGCCGAGCCTACACGGACGACCCAGATTAATC

Found at i:962 original size:12 final size:12

Alignment explanation


    Indices: 947--989  Score: 50
    Period size: 12  Copynumber: 3.6  Consensus size: 12

        937 CCTCCTGCTC

                        
        947 CTCCTACTACTA
          1 CTCCTACTACTA

                    * * 
        959 CTCCTACTCCGA
          1 CTCCTACTACTA

              *         
        971 CTGCTACTACTA
          1 CTCCTACTACTA

              *    
        983 CTACTAC
          1 CTCCTAC

        990 GGAGCATGGT


Statistics
Matches: 25,  Mismatches: 6, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  12   25  1.00

ACGTcount: A:0.23, C:0.42, G:0.05, T:0.30


Consensus pattern (12 bp):   
CTCCTACTACTA
Done.