Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023401.1 Corchorus olitorius cultivar O-4 contig23434, 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: 11811
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36


Found at i:5961 original size:73 final size:73

Alignment explanation


    Indices: 5775--5989  Score: 254
    Period size: 73  Copynumber: 2.9  Consensus size: 73

       5765 ACCCTCTGGA

                        *                          *          *    *        *
       5775 AATTACTGATAGATCCCATCAACTTTTAACGTGGGAGAATCTTTTCGCCCTATTTTGGTCTTTTC
          1 AATTACTGATAGCTCCCATCAACTTTTAACGT-GGAGAACCTTTTCGCCCCATTTCGGTCTTTTA

                     
       5840 TCACTTTGG
         65 TCACTTTGG

                  ** *           *                             *             
       5849 AATTACCAAAAGCTCCCATCACCTTTTAACGTGGAAGAACCTTTTCGCCCCGTTTCGGTC-TTTA
          1 AATTACTGATAGCTCCCATCAACTTTTAACGTGG-AGAACCTTTTCGCCCCATTTCGGTCTTTTA

                     
       5913 TCAC-TTGG
         65 TCACTTTGG

                                          *   *                     *   *    
       5921 AATTTACTGATAGCTCCCATCAACTTTTAATGTAAGAGAACCTTTTCGCCCCATTTTGGTGTTTT
          1 AA-TTACTGATAGCTCCCATCAACTTTTAACGT-GGAGAACCTTTTCGCCCCATTTCGGTCTTTT

                
       5986 ATCA
         64 ATCA

       5990 ATTTAGTTAA


Statistics
Matches: 118,  Mismatches: 19, Indels: 8
        0.81            0.13        0.06

Matches are distributed among these distances:
  72    6  0.05
  73   56  0.47
  74   56  0.47

ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37


Consensus pattern (73 bp):   
AATTACTGATAGCTCCCATCAACTTTTAACGTGGAGAACCTTTTCGCCCCATTTCGGTCTTTTAT
CACTTTGG

Found at i:8749 original size:38 final size:37

Alignment explanation


    Indices: 8693--8764  Score: 126
    Period size: 38  Copynumber: 1.9  Consensus size: 37

       8683 TTTTAATGAT

                                                 
       8693 TGAAATGTTTTTATTTGAGTCTAACATGAAATTATAG
          1 TGAAATGTTTTTATTTGAGTCTAACATGAAATTATAG

                                     *         
       8730 TGAAATGTTTTTTATTTGAGTCTAATATGAAATTA
          1 TGAAATG-TTTTTATTTGAGTCTAACATGAAATTA

       8765 CTTCTTTTGG


Statistics
Matches: 33,  Mismatches: 1, Indels: 1
        0.94            0.03        0.03

Matches are distributed among these distances:
  37    7  0.21
  38   26  0.79

ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46


Consensus pattern (37 bp):   
TGAAATGTTTTTATTTGAGTCTAACATGAAATTATAG
Done.