Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013596.1 Corchorus olitorius cultivar O-4 contig13629, 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: 5749
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31


Found at i:2152 original size:39 final size:39

Alignment explanation


    Indices: 2098--2175  Score: 156
    Period size: 39  Copynumber: 2.0  Consensus size: 39

       2088 CATTGTTTGA

                                                   
       2098 ATCTCCTTGAAGGTCCTCTTGGATGATTGTAACGAGGTT
          1 ATCTCCTTGAAGGTCCTCTTGGATGATTGTAACGAGGTT

                                                   
       2137 ATCTCCTTGAAGGTCCTCTTGGATGATTGTAACGAGGTT
          1 ATCTCCTTGAAGGTCCTCTTGGATGATTGTAACGAGGTT

       2176 GTCCAAAGCG


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  39   39  1.00

ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36


Consensus pattern (39 bp):   
ATCTCCTTGAAGGTCCTCTTGGATGATTGTAACGAGGTT

Found at i:2952 original size:21 final size:21

Alignment explanation


    Indices: 2926--2975  Score: 75
    Period size: 21  Copynumber: 2.4  Consensus size: 21

       2916 AGGGATCAAG

                          *       
       2926 CTGGGCGCTGA-GCCTTGTCGC
          1 CTGGGCGCTGAGGCATT-TCGC

                                 
       2947 CTGGGCGCTGAGGCATTTCGC
          1 CTGGGCGCTGAGGCATTTCGC

                    
       2968 CTGGGCGC
          1 CTGGGCGC

       2976 CCAGCGGCAA


Statistics
Matches: 27,  Mismatches: 1, Indels: 2
        0.90            0.03        0.07

Matches are distributed among these distances:
  21   23  0.85
  22    4  0.15

ACGTcount: A:0.06, C:0.32, G:0.40, T:0.22


Consensus pattern (21 bp):   
CTGGGCGCTGAGGCATTTCGC
Done.