Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g00072.P1

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: 4800
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32


Found at i:1020 original size:20 final size:22

Alignment explanation


    Indices: 994--1037  Score: 72
    Period size: 21  Copynumber: 2.0  Consensus size: 22

        984 TTTTGATCGC

                   *              
        994 TTTTTTTTGGTGAAAAAA-ATA
          1 TTTTTTTGGGTGAAAAAATATA

                                  
       1015 TTTTTTTGGGTGAAAAAATATA
          1 TTTTTTTGGGTGAAAAAATATA

             
       1037 T
          1 T

       1038 ATAATAAAGT


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  21   17  0.81
  22    4  0.19

ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48


Consensus pattern (22 bp):   
TTTTTTTGGGTGAAAAAATATA

Found at i:1830 original size:31 final size:31

Alignment explanation


    Indices: 1765--1830  Score: 80
    Period size: 31  Copynumber: 2.1  Consensus size: 31

       1755 TCAGCATAAA

                                        ** 
       1765 AACTTAAATAAAAATTTTTAAATAGTTCGTT
          1 AACTTAAATAAAAATTTTTAAATAGTTCAAT

                                *       *   
       1796 AACTTAAATGAAAAA-TTTTGAATAGTTTAAT
          1 AACTTAAAT-AAAAATTTTTAAATAGTTCAAT

                
       1827 AACT
          1 AACT

       1831 ATGTTGTAAC


Statistics
Matches: 30,  Mismatches: 4, Indels: 2
        0.83            0.11        0.06

Matches are distributed among these distances:
  31   25  0.83
  32    5  0.17

ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39


Consensus pattern (31 bp):   
AACTTAAATAAAAATTTTTAAATAGTTCAAT
Done.