Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00106.F1

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: 1857
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26


Found at i:399 original size:135 final size:135

Alignment explanation


    Indices: 209--481  Score: 431
    Period size: 135  Copynumber: 2.0  Consensus size: 135

        199 TCTCGTATGA

                    *                                                       *
        209 TGAGCATCGCTAACAGATCAATCCTTAAAGATTCCAATAAAGAGATTGGAGACTTGAGACAACAT
          1 TGAGCATCCCTAACAGATCAATCCTTAAAGATTCCAATAAAGAGATTGGAGACTTGAGACAACAG

                          **                                   *             
        274 GGGGGATTCACCTATGGTGGAGACACGAACTTTCAAGAGACCTCAACAAGAGCTGGGAACCATGA
         66 GGGGGATTCACCTACAGTGGAGACACGAACTTTCAAGAGACCTCAACAAGAACTGGGAACCATGA

                 
        339 TACTT
        131 TACTT

                                 *            *    *    *                    
        344 TGAGCATCCCTAACA-AGTCAGTCCTTAAAGATTTCAATGAAGATATTGGAGACTTGAGACAACA
          1 TGAGCATCCCTAACAGA-TCAATCCTTAAAGATTCCAATAAAGAGATTGGAGACTTGAGACAACA

                      *                                                 *    
        408 GGGGGGATTCGCCTACAGTGGAGACACGAACTTTCAAGAGACCTCAACAAGAACTGGGAATCATG
         65 GGGGGGATTCACCTACAGTGGAGACACGAACTTTCAAGAGACCTCAACAAGAACTGGGAACCATG

                  
        473 ATACTT
        130 ATACTT

               
        479 TGA
          1 TGA

        482 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:1780 original size:11 final size:10

Alignment explanation


    Indices: 1764--1792  Score: 58
    Period size: 10  Copynumber: 2.9  Consensus size: 10

       1754 GTTTTGGGTT

                      
       1764 AAAAAAAACA
          1 AAAAAAAACA

                      
       1774 AAAAAAAACA
          1 AAAAAAAACA

                     
       1784 AAAAAAAAC
          1 AAAAAAAAC

       1793 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.