Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g00004.M1

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: 5147
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32


Found at i:2891 original size:16 final size:16

Alignment explanation


    Indices: 2870--2901  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       2860 GCGTGGAAGA

                            
       2870 AAGAGAATAGTTTCAG
          1 AAGAGAATAGTTTCAG

                            
       2886 AAGAGAATAGTTTCAG
          1 AAGAGAATAGTTTCAG

       2902 TTGAATATTA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25


Consensus pattern (16 bp):   
AAGAGAATAGTTTCAG

Found at i:4696 original size:39 final size:39

Alignment explanation


    Indices: 4642--4724  Score: 130
    Period size: 39  Copynumber: 2.1  Consensus size: 39

       4632 CCACTGGCCA

                    *                              
       4642 CCACCATCGTCGTTCACCAGTCAGGCAGTCACCACCGGT
          1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

                                     *        **   
       4681 CCACCATCATCGTTCACCAGTCAGGTAGTCACCATTGGT
          1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

                 
       4720 CCACC
          1 CCACC

       4725 CGTAACCACC


Statistics
Matches: 40,  Mismatches: 4, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  39   40  1.00

ACGTcount: A:0.22, C:0.40, G:0.18, T:0.20


Consensus pattern (39 bp):   
CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT
Done.