Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g01072.N1

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: 2807
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28


Found at i:361 original size:88 final size:89

Alignment explanation


    Indices: 250--423  Score: 323
    Period size: 88  Copynumber: 2.0  Consensus size: 89

        240 CCTGCTTCTT

                                                                             
        250 CAGATTTGAACTCCATGGAAGCTTTAACTTCTTTGTAAATGGAAGGAT-AAAAAACGAACGTCAT
          1 CAGATTTGAACTCCATGGAAGCTTTAACTTCTTTGTAAATGGAAGGATAAAAAAACGAACGTCAT

                                    
        314 TTGAGCAGATGTAAAAAAGTTTTA
         66 TTGAGCAGATGTAAAAAAGTTTTA

                          *                                          *       
        338 CAGATTTGAACTCCGTGGAAGCTTTAACTTCTTTGTAAATGGAAGGATAAAAAAACGGACGTCAT
          1 CAGATTTGAACTCCATGGAAGCTTTAACTTCTTTGTAAATGGAAGGATAAAAAAACGAACGTCAT

                                 
        403 TTGAGCAGATGTAAAAAAGTT
         66 TTGAGCAGATGTAAAAAAGTT

        424 AACACATTGC


Statistics
Matches: 83,  Mismatches: 2, Indels: 1
        0.97            0.02        0.01

Matches are distributed among these distances:
  88   47  0.57
  89   36  0.43

ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29


Consensus pattern (89 bp):   
CAGATTTGAACTCCATGGAAGCTTTAACTTCTTTGTAAATGGAAGGATAAAAAAACGAACGTCAT
TTGAGCAGATGTAAAAAAGTTTTA

Found at i:1815 original size:24 final size:24

Alignment explanation


    Indices: 1788--1833  Score: 92
    Period size: 24  Copynumber: 1.9  Consensus size: 24

       1778 CATGGATTTG

                                    
       1788 TTGACTGTCAAGAAAATGGTTCTT
          1 TTGACTGTCAAGAAAATGGTTCTT

                                  
       1812 TTGACTGTCAAGAAAATGGTTC
          1 TTGACTGTCAAGAAAATGGTTC

       1834 AGCTGGTGCC


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  24   22  1.00

ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35


Consensus pattern (24 bp):   
TTGACTGTCAAGAAAATGGTTCTT
Done.