Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g02396.F4

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: 4242
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30


Found at i:254 original size:5 final size:5

Alignment explanation


    Indices: 244--268  Score: 50
    Period size: 5  Copynumber: 5.0  Consensus size: 5

        234 AGAGAGATAA

                                         
        244 AAGAG AAGAG AAGAG AAGAG AAGAG
          1 AAGAG AAGAG AAGAG AAGAG AAGAG

        269 GGGGGTTATC


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   5   20  1.00

ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00


Consensus pattern (5 bp):   
AAGAG

Found at i:3054 original size:151 final size:148

Alignment explanation


    Indices: 2762--3059  Score: 560
    Period size: 151  Copynumber: 2.0  Consensus size: 148

       2752 AATAATATTT

                                                                             
       2762 CTTGTGGAACATCTTTCATGATCCTTGGAGAGAGTTCACTAGTAGATTTGGTTTGTTTCTCTTTT
          1 CTTGTGGAACATCTTTCATGATCCTTGGAGAGAGTTCACTAGTAGATTTGGTTTGTTTCTCTTTT

                                                                             
       2827 TTTTTTTTAATGCTTGTGTTGGAGTAAAAGGAGGAGCAAAAACACCCAAAAACAAGAGTTAGGGG
         66 TTTTTTTTAATGCTTGTGTTGGAGTAAAAGGAGGAGCAAAAACACCCAAAAACAAGAGTTAGGGG

                  *           
       2892 TGGGGGGTGGTAAAATGG
        131 TGGGGGATGGTAAAATGG

                                                                             
       2910 CTTGTGGAACATCTTTCATGATCCTTGGAGAGAGTTCACTAGTAGATTTGGTTTGTTTCTCTTTT
          1 CTTGTGGAACATCTTTCATGATCCTTGGAGAGAGTTCACTAGTAGATTTGGTTTGTTTCTC---T

                                                                             
       2975 TTTTTTTTTTTAATGCTTGTGTTGGAGTAAAAGGAGGAGCAAAAACACCCAAAAACAAGAGTTAG
         63 TTTTTTTTTTTAATGCTTGTGTTGGAGTAAAAGGAGGAGCAAAAACACCCAAAAACAAGAGTTAG

                                
       3040 GGGTGGGGGATGGTAAAATG
        128 GGGTGGGGGATGGTAAAATG

       3060 TGAAAGGCCA


Statistics
Matches: 146,  Mismatches: 1, Indels: 3
        0.97            0.01        0.02

Matches are distributed among these distances:
 148   61  0.42
 151   85  0.58

ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35


Consensus pattern (148 bp):   
CTTGTGGAACATCTTTCATGATCCTTGGAGAGAGTTCACTAGTAGATTTGGTTTGTTTCTCTTTT
TTTTTTTTAATGCTTGTGTTGGAGTAAAAGGAGGAGCAAAAACACCCAAAAACAAGAGTTAGGGG
TGGGGGATGGTAAAATGG
Done.