Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g01011.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, 790

Length: 1318
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31


Found at i:552 original size:33 final size:34

Alignment explanation


    Indices: 481--559  Score: 124
    Period size: 33  Copynumber: 2.4  Consensus size: 34

        471 TTATTGAAAG

                                             *
        481 TGTTGAAGACACCAACGAAGTAATAAGAGTACTG
          1 TGTTGAAGACACCAACGAAGTAATAAGAGTACTC

                           *        *         
        515 TGTTGAAGACACCAATGAAGT-ATTAGAGTACTC
          1 TGTTGAAGACACCAACGAAGTAATAAGAGTACTC

                        
        548 TGTTGAAGACAC
          1 TGTTGAAGACAC

        560 TTTCAACTAA


Statistics
Matches: 42,  Mismatches: 3, Indels: 1
        0.91            0.07        0.02

Matches are distributed among these distances:
  33   22  0.52
  34   20  0.48

ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24


Consensus pattern (34 bp):   
TGTTGAAGACACCAACGAAGTAATAAGAGTACTC

Found at i:889 original size:18 final size:18

Alignment explanation


    Indices: 866--900  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

        856 AGGCGCTCTC

                   *   *      
        866 CACCAAGTTATTCTCGAT
          1 CACCAAGATATGCTCGAT

                             
        884 CACCAAGATATGCTCGA
          1 CACCAAGATATGCTCGA

        901 AGTTACTCCC


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  18   15  1.00

ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26


Consensus pattern (18 bp):   
CACCAAGATATGCTCGAT
Done.