Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g01860.P3

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: 6078
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35


Found at i:48 original size:29 final size:29

Alignment explanation


    Indices: 6--80  Score: 150
    Period size: 29  Copynumber: 2.6  Consensus size: 29

          1 ATGTA

                                         
          6 TGTATATTCGTATGTAACTATTAATTTTC
          1 TGTATATTCGTATGTAACTATTAATTTTC

                                         
         35 TGTATATTCGTATGTAACTATTAATTTTC
          1 TGTATATTCGTATGTAACTATTAATTTTC

                             
         64 TGTATATTCGTATGTAA
          1 TGTATATTCGTATGTAA

         81 GGCAATACTT


Statistics
Matches: 46,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  29   46  1.00

ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51


Consensus pattern (29 bp):   
TGTATATTCGTATGTAACTATTAATTTTC

Found at i:4882 original size:54 final size:54

Alignment explanation


    Indices: 4800--4908  Score: 218
    Period size: 54  Copynumber: 2.0  Consensus size: 54

       4790 GCCATGGAGG

                                                                  
       4800 TAGGTGTTTAATCATTTATAACAACAAAAGGGAGCTGTGTATTTTTGTCCTTTA
          1 TAGGTGTTTAATCATTTATAACAACAAAAGGGAGCTGTGTATTTTTGTCCTTTA

                                                                  
       4854 TAGGTGTTTAATCATTTATAACAACAAAAGGGAGCTGTGTATTTTTGTCCTTTA
          1 TAGGTGTTTAATCATTTATAACAACAAAAGGGAGCTGTGTATTTTTGTCCTTTA

             
       4908 T
          1 T

       4909 TCTTTTATGA


Statistics
Matches: 55,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  54   55  1.00

ACGTcount: A:0.29, C:0.11, G:0.18, T:0.41


Consensus pattern (54 bp):   
TAGGTGTTTAATCATTTATAACAACAAAAGGGAGCTGTGTATTTTTGTCCTTTA

Found at i:4921 original size:24 final size:25

Alignment explanation


    Indices: 4894--4940  Score: 69
    Period size: 24  Copynumber: 1.9  Consensus size: 25

       4884 GGAGCTGTGT

                                     
       4894 ATTTTTGTCCTTT-ATTCTTTTATG
          1 ATTTTTGTCCTTTAATTCTTTTATG

                  *          *     
       4918 ATTTTTTTCCTTTAATTTTTTTA
          1 ATTTTTGTCCTTTAATTCTTTTA

       4941 AATTGCTTTT


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  24   12  0.60
  25    8  0.40

ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70


Consensus pattern (25 bp):   
ATTTTTGTCCTTTAATTCTTTTATG

Done.