Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019761.1 Corchorus olitorius cultivar O-4 contig19794, 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: 5942
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35


Found at i:2684 original size:18 final size:18

Alignment explanation


    Indices: 2661--2699  Score: 78
    Period size: 18  Copynumber: 2.2  Consensus size: 18

       2651 AAAAGTCTCT

                              
       2661 ACCCTCTTGAAACCCCAA
          1 ACCCTCTTGAAACCCCAA

                              
       2679 ACCCTCTTGAAACCCCAA
          1 ACCCTCTTGAAACCCCAA

               
       2697 ACC
          1 ACC

       2700 TAGGTATTAA


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   21  1.00

ACGTcount: A:0.33, C:0.46, G:0.05, T:0.15


Consensus pattern (18 bp):   
ACCCTCTTGAAACCCCAA

Found at i:2926 original size:25 final size:26

Alignment explanation


    Indices: 2898--2955  Score: 109
    Period size: 26  Copynumber: 2.3  Consensus size: 26

       2888 CCACTTTCCT

                                      
       2898 CGACGTTTCGCC-CCAGTTGCAGCCC
          1 CGACGTTTCGCCGCCAGTTGCAGCCC

                                      
       2923 CGACGTTTCGCCGCCAGTTGCAGCCC
          1 CGACGTTTCGCCGCCAGTTGCAGCCC

                   
       2949 CGACGTT
          1 CGACGTT

       2956 GACGTCTCTA


Statistics
Matches: 32,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
  25   12  0.38
  26   20  0.62

ACGTcount: A:0.12, C:0.41, G:0.26, T:0.21


Consensus pattern (26 bp):   
CGACGTTTCGCCGCCAGTTGCAGCCC

Found at i:4889 original size:22 final size:22

Alignment explanation


    Indices: 4864--4905  Score: 59
    Period size: 22  Copynumber: 1.9  Consensus size: 22

       4854 TTGTAAAAAT

                                   
       4864 AATAT-TATCATTGAATTATTAC
          1 AATATATATC-TTGAATTATTAC

                          *     
       4886 AATATATATCTTGATTTATT
          1 AATATATATCTTGAATTATT

       4906 CTTATTATAT


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  22   14  0.78
  23    4  0.22

ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50


Consensus pattern (22 bp):   
AATATATATCTTGAATTATTAC
Done.