Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015145.1 Corchorus olitorius cultivar O-4 contig15178, 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: 9473
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31


Found at i:66 original size:14 final size:15

Alignment explanation


    Indices: 49--77  Score: 51
    Period size: 14  Copynumber: 2.0  Consensus size: 15

         39 TTAAAGAAAC

                           
         49 ATTATTA-ATTATAA
          1 ATTATTATATTATAA

                           
         63 ATTATTATATTATAA
          1 ATTATTATATTATAA

         78 TACTTGATAA


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14    7  0.50
  15    7  0.50

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (15 bp):   
ATTATTATATTATAA

Found at i:6260 original size:37 final size:41

Alignment explanation


    Indices: 6194--6276  Score: 120
    Period size: 39  Copynumber: 2.1  Consensus size: 41

       6184 CCGCGCAGCA

                                           *         
       6194 GGCCCGCGCGCCTAGCCTGGCGCGCTTGGGCTATGC-G-CT
          1 GGCCCGCGCGCCTAGCCTGGCGCGCTTGGGCCATGCTGACT

                              *                      
       6233 GGCCCGCGCGCCTAG-CTTGCGCG-TTGGGCCATGCTGACT
          1 GGCCCGCGCGCCTAGCCTGGCGCGCTTGGGCCATGCTGACT

                 
       6272 GGCCC
          1 GGCCC

       6277 ATTGGCCTTT


Statistics
Matches: 40,  Mismatches: 2, Indels: 4
        0.87            0.04        0.09

Matches are distributed among these distances:
  37   10  0.25
  38    8  0.20
  39   22  0.55

ACGTcount: A:0.06, C:0.39, G:0.37, T:0.18


Consensus pattern (41 bp):   
GGCCCGCGCGCCTAGCCTGGCGCGCTTGGGCCATGCTGACT
Done.