Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g02768.F1

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, 927

Length: 1545
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24


Found at i:530 original size:18 final size:17

Alignment explanation


    Indices: 492--553  Score: 65
    Period size: 18  Copynumber: 3.6  Consensus size: 17

        482 CGAAAGGGAG

                             
        492 AGGGAAAGAGAAGAG--
          1 AGGGAAAGAGAAGAGAA

                              
        507 AGGGAAAGAGAGAGAGAA
          1 AGGGAAAGAGA-AGAGAA

                    *     *   
        525 AGGGAAAGGGAAAGGGAA
          1 AGGGAAAGAG-AAGAGAA

              *        
        543 AGAGAAAGAGA
          1 AGGGAAAGAGA

        554 TTTCAATGAT


Statistics
Matches: 39,  Mismatches: 4, Indels: 6
        0.80            0.08        0.12

Matches are distributed among these distances:
  15   11  0.28
  16    4  0.10
  17    1  0.03
  18   22  0.56
  19    1  0.03

ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00


Consensus pattern (17 bp):   
AGGGAAAGAGAAGAGAA

Found at i:531 original size:6 final size:6

Alignment explanation


    Indices: 483--550  Score: 55
    Period size: 6  Copynumber: 10.8  Consensus size: 6

        473 GGAAGAAGAC

                     *                *         *   *  *              
        483 GAAAGG GAGAGG GAAAGAG AAGAGAGG GAAAGA GAGAGA GAAAGG GAAAGG
          1 GAAAGG GAAAGG GAAAG-G --GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG

                        *      
        534 GAAAGG GAAAGA GAAAG
          1 GAAAGG GAAAGG GAAAG

        551 AGATTTCAAT


Statistics
Matches: 50,  Mismatches: 9, Indels: 6
        0.77            0.14        0.09

Matches are distributed among these distances:
   6   44  0.88
   7    1  0.02
   8    1  0.02
   9    4  0.08

ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00


Consensus pattern (6 bp):   
GAAAGG

Done.