Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00058.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: 4188
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31


Found at i:1418 original size:19 final size:19

Alignment explanation


    Indices: 1372--1419  Score: 62
    Period size: 19  Copynumber: 2.6  Consensus size: 19

       1362 GTATATATTT

                               
       1372 TAAA-TTTATTTAGATAGA
          1 TAAATTTTATTTAGATAGA

                 *      * *    
       1390 TAAATCTTATTTGGGTAGA
          1 TAAATTTTATTTAGATAGA

                       
       1409 TAAATTTTATT
          1 TAAATTTTATT

       1420 CATATTCTAG


Statistics
Matches: 25,  Mismatches: 4, Indels: 1
        0.83            0.13        0.03

Matches are distributed among these distances:
  18    4  0.16
  19   21  0.84

ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48


Consensus pattern (19 bp):   
TAAATTTTATTTAGATAGA

Found at i:1479 original size:42 final size:43

Alignment explanation


    Indices: 1428--1521  Score: 138
    Period size: 43  Copynumber: 2.2  Consensus size: 43

       1418 TTCATATTCT

                *                                       
       1428 AGAAATATTTT-TATTTTAT-TTTTAGTAGTTTACTAGAATAAG
          1 AGAACTATTTTCT-TTTTATATTTTAGTAGTTTACTAGAATAAG

                                             *         
       1470 AGAACTATTTTCTTTTTATATTTTAGTAGTTTATTAGAATAAG
          1 AGAACTATTTTCTTTTTATATTTTAGTAGTTTACTAGAATAAG

            *        
       1513 GGAACTATT
          1 AGAACTATT

       1522 CTCTATTAAA


Statistics
Matches: 47,  Mismatches: 3, Indels: 3
        0.89            0.06        0.06

Matches are distributed among these distances:
  42   16  0.34
  43   31  0.66

ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49


Consensus pattern (43 bp):   
AGAACTATTTTCTTTTTATATTTTAGTAGTTTACTAGAATAAG

Done.