Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g01508.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: 5175
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28


Found at i:1229 original size:21 final size:21

Alignment explanation


    Indices: 1204--1244  Score: 55
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       1194 AAATGGCGAG

                          *      
       1204 GGAGATAGAGACGATGAGGAT
          1 GGAGATAGAGACGAAGAGGAT

                  *    *        
       1225 GGAGATGGAGATGAAGAGGA
          1 GGAGATAGAGACGAAGAGGA

       1245 CCGAGGTGAT


Statistics
Matches: 17,  Mismatches: 3, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.39, C:0.02, G:0.46, T:0.12


Consensus pattern (21 bp):   
GGAGATAGAGACGAAGAGGAT

Found at i:2885 original size:16 final size:16

Alignment explanation


    Indices: 2864--2895  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       2854 AAGAAGCACA

                            
       2864 ACAGATAAATTTATCT
          1 ACAGATAAATTTATCT

                            
       2880 ACAGATAAATTTATCT
          1 ACAGATAAATTTATCT

       2896 TCTTTGACAC


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:0.12, G:0.06, T:0.38


Consensus pattern (16 bp):   
ACAGATAAATTTATCT

Found at i:3998 original size:31 final size:31

Alignment explanation


    Indices: 3963--4024  Score: 124
    Period size: 31  Copynumber: 2.0  Consensus size: 31

       3953 AAGATTTAAA

                                           
       3963 CTTCAAAAACAAGTAACGAGAAAAAGAAACT
          1 CTTCAAAAACAAGTAACGAGAAAAAGAAACT

                                           
       3994 CTTCAAAAACAAGTAACGAGAAAAAGAAACT
          1 CTTCAAAAACAAGTAACGAGAAAAAGAAACT

       4025 TACTTTTTTC


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  31   31  1.00

ACGTcount: A:0.58, C:0.16, G:0.13, T:0.13


Consensus pattern (31 bp):   
CTTCAAAAACAAGTAACGAGAAAAAGAAACT
Done.