Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011556.1 Corchorus olitorius cultivar O-4 contig11589, 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: 4295
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29


Found at i:2042 original size:22 final size:22

Alignment explanation


    Indices: 2014--2057  Score: 88
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       2004 CATTTTCCTT

                                  
       2014 TGCCTCTTAAGGCTCCCAATAG
          1 TGCCTCTTAAGGCTCCCAATAG

                                  
       2036 TGCCTCTTAAGGCTCCCAATAG
          1 TGCCTCTTAAGGCTCCCAATAG

       2058 CCTAGGGATG


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27


Consensus pattern (22 bp):   
TGCCTCTTAAGGCTCCCAATAG

Found at i:2690 original size:22 final size:22

Alignment explanation


    Indices: 2662--2705  Score: 88
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       2652 ATACATCAAT

                                  
       2662 CAGGGGATGAAAGAGCTGATTA
          1 CAGGGGATGAAAGAGCTGATTA

                                  
       2684 CAGGGGATGAAAGAGCTGATTA
          1 CAGGGGATGAAAGAGCTGATTA

       2706 TTGCCGATAG


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.36, C:0.09, G:0.36, T:0.18


Consensus pattern (22 bp):   
CAGGGGATGAAAGAGCTGATTA

Found at i:3887 original size:19 final size:19

Alignment explanation


    Indices: 3863--3919  Score: 114
    Period size: 19  Copynumber: 3.0  Consensus size: 19

       3853 CTAATTCTAA

                               
       3863 GTAAAGTCAGAAAGATAAC
          1 GTAAAGTCAGAAAGATAAC

                               
       3882 GTAAAGTCAGAAAGATAAC
          1 GTAAAGTCAGAAAGATAAC

                               
       3901 GTAAAGTCAGAAAGATAAC
          1 GTAAAGTCAGAAAGATAAC

       3920 TTCTGCTCGA


Statistics
Matches: 38,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   38  1.00

ACGTcount: A:0.53, C:0.11, G:0.21, T:0.16


Consensus pattern (19 bp):   
GTAAAGTCAGAAAGATAAC
Done.