Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g01191.F2

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: 4204
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36


Found at i:1307 original size:20 final size:20

Alignment explanation


    Indices: 1282--1321  Score: 71
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       1272 CGCCACATTG

                         *      
       1282 AAATGGAATAGGATTAAAAT
          1 AAATGGAATAGGAATAAAAT

                                
       1302 AAATGGAATAGGAATAAAAT
          1 AAATGGAATAGGAATAAAAT

       1322 GGAATAGGTT


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  20   19  1.00

ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23


Consensus pattern (20 bp):   
AAATGGAATAGGAATAAAAT

Found at i:1323 original size:16 final size:16

Alignment explanation


    Indices: 1302--1343  Score: 57
    Period size: 16  Copynumber: 2.6  Consensus size: 16

       1292 GGATTAAAAT

                            
       1302 AAATGGAATAGGAATA
          1 AAATGGAATAGGAATA

                        **  
       1318 AAATGGAATAGGTTTA
          1 AAATGGAATAGGAATA

                *     
       1334 AAATAGAATA
          1 AAATGGAATA

       1344 AAGTTATAAT


Statistics
Matches: 23,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  16   23  1.00

ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24


Consensus pattern (16 bp):   
AAATGGAATAGGAATA

Found at i:3563 original size:40 final size:40

Alignment explanation


    Indices: 3510--3585  Score: 125
    Period size: 40  Copynumber: 1.9  Consensus size: 40

       3500 AGTGTTTGTT

                *   *                               
       3510 TCGAGATAGCTTCGGTTATATATAGCACTTAGTGTGCATA
          1 TCGAAATAACTTCGGTTATATATAGCACTTAGTGTGCATA

                                   *            
       3550 TCGAAATAACTTCGGTTATATATGGCACTTAGTGTG
          1 TCGAAATAACTTCGGTTATATATAGCACTTAGTGTG

       3586 TAAGATCGAG


Statistics
Matches: 33,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  40   33  1.00

ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36


Consensus pattern (40 bp):   
TCGAAATAACTTCGGTTATATATAGCACTTAGTGTGCATA
Done.