Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00106.F3

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: 2149
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27


Found at i:693 original size:135 final size:135

Alignment explanation


    Indices: 503--775  Score: 431
    Period size: 135  Copynumber: 2.0  Consensus size: 135

        493 TCTCGTATGA

                    *                                                       *
        503 TGAGCATCGCTAACAGATCAATCCTTAAAGATTCCAATAAAGAGATTGGAGACTTGAGACAACAT
          1 TGAGCATCCCTAACAGATCAATCCTTAAAGATTCCAATAAAGAGATTGGAGACTTGAGACAACAG

                          **                                   *             
        568 GGGGGATTCACCTATGGTGGAGACACGAACTTTCAAGAGACCTCAACAAGAGCTGGGAACCATGA
         66 GGGGGATTCACCTACAGTGGAGACACGAACTTTCAAGAGACCTCAACAAGAACTGGGAACCATGA

                 
        633 TACTT
        131 TACTT

                                 *            *    *    *                    
        638 TGAGCATCCCTAACA-AGTCAGTCCTTAAAGATTTCAATGAAGATATTGGAGACTTGAGACAACA
          1 TGAGCATCCCTAACAGA-TCAATCCTTAAAGATTCCAATAAAGAGATTGGAGACTTGAGACAACA

                      *                                                 *    
        702 GGGGGGATTCGCCTACAGTGGAGACACGAACTTTCAAGAGACCTCAACAAGAACTGGGAATCATG
         65 GGGGGGATTCACCTACAGTGGAGACACGAACTTTCAAGAGACCTCAACAAGAACTGGGAACCATG

                  
        767 ATACTT
        130 ATACTT

               
        773 TGA
          1 TGA

        776 TCCATGCCTC


Statistics
Matches: 126,  Mismatches: 11, Indels: 2
        0.91            0.08        0.01

Matches are distributed among these distances:
 134    1  0.01
 135  125  0.99

ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22


Consensus pattern (135 bp):   
TGAGCATCCCTAACAGATCAATCCTTAAAGATTCCAATAAAGAGATTGGAGACTTGAGACAACAG
GGGGGATTCACCTACAGTGGAGACACGAACTTTCAAGAGACCTCAACAAGAACTGGGAACCATGA
TACTT

Found at i:2074 original size:11 final size:10

Alignment explanation


    Indices: 2058--2086  Score: 58
    Period size: 10  Copynumber: 2.9  Consensus size: 10

       2048 GTTTTGGGTT

                      
       2058 AAAAAAAACA
          1 AAAAAAAACA

                      
       2068 AAAAAAAACA
          1 AAAAAAAACA

                     
       2078 AAAAAAAAC
          1 AAAAAAAAC

       2087 TATGGTTTTG


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   19  1.00

ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00


Consensus pattern (10 bp):   
AAAAAAAACA
Done.