Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020092.1 Corchorus olitorius cultivar O-4 contig20125, whole genome shotgun sequence

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: 10311
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33


Found at i:7357 original size:16 final size:16

Alignment explanation


    Indices: 7338--7369  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       7328 ATCAATAAAT

                            
       7338 AAAGCATCCTTAAAAA
          1 AAAGCATCCTTAAAAA

                            
       7354 AAAGCATCCTTAAAAA
          1 AAAGCATCCTTAAAAA

       7370 TGAACCTAAA


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:0.56, C:0.19, G:0.06, T:0.19


Consensus pattern (16 bp):   
AAAGCATCCTTAAAAA

Found at i:7368 original size:15 final size:15

Alignment explanation


    Indices: 7333--7369  Score: 56
    Period size: 16  Copynumber: 2.4  Consensus size: 15

       7323 AATCAATCAA

                *          
       7333 TAAATAAAGCATCCT
          1 TAAAAAAAGCATCCT

                            
       7348 TAAAAAAAAGCATCCT
          1 T-AAAAAAAGCATCCT

                  
       7364 TAAAAA
          1 TAAAAA

       7370 TGAACCTAAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  15    6  0.30
  16   14  0.70

ACGTcount: A:0.57, C:0.16, G:0.05, T:0.22


Consensus pattern (15 bp):   
TAAAAAAAGCATCCT

Found at i:8921 original size:33 final size:33

Alignment explanation


    Indices: 8877--8946  Score: 113
    Period size: 33  Copynumber: 2.1  Consensus size: 33

       8867 GGATAGGTAC

                *          *                 
       8877 TTAATTAATGATCAAGAGGAAAAAGGATTTAAA
          1 TTAAGTAATGATCAAAAGGAAAAAGGATTTAAA

                                   *         
       8910 TTAAGTAATGATCAAAAGGAAAAGGGATTTAAA
          1 TTAAGTAATGATCAAAAGGAAAAAGGATTTAAA

                
       8943 TTAA
          1 TTAA

       8947 AATGAAGTAA


Statistics
Matches: 34,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  33   34  1.00

ACGTcount: A:0.51, C:0.03, G:0.19, T:0.27


Consensus pattern (33 bp):   
TTAAGTAATGATCAAAAGGAAAAAGGATTTAAA
Done.