Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013753.1 Corchorus olitorius cultivar O-4 contig13786, 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: 10818
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31


Found at i:185 original size:14 final size:14

Alignment explanation


    Indices: 168--196  Score: 58
    Period size: 14  Copynumber: 2.1  Consensus size: 14

        158 TTTTGTTATA

                          
        168 TTCTTTTGTTTGGG
          1 TTCTTTTGTTTGGG

                          
        182 TTCTTTTGTTTGGG
          1 TTCTTTTGTTTGGG

             
        196 T
          1 T

        197 ACAACGGAAA


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.00, C:0.07, G:0.28, T:0.66


Consensus pattern (14 bp):   
TTCTTTTGTTTGGG

Found at i:4748 original size:52 final size:52

Alignment explanation


    Indices: 4670--4773  Score: 208
    Period size: 52  Copynumber: 2.0  Consensus size: 52

       4660 TCTGATACGT

                                                                
       4670 TCTTCACTCTTCGTATGCTTTTAAGATCCACTCATGAATTATGAACACCAAA
          1 TCTTCACTCTTCGTATGCTTTTAAGATCCACTCATGAATTATGAACACCAAA

                                                                
       4722 TCTTCACTCTTCGTATGCTTTTAAGATCCACTCATGAATTATGAACACCAAA
          1 TCTTCACTCTTCGTATGCTTTTAAGATCCACTCATGAATTATGAACACCAAA

       4774 CCTTAAATCG


Statistics
Matches: 52,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  52   52  1.00

ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35


Consensus pattern (52 bp):   
TCTTCACTCTTCGTATGCTTTTAAGATCCACTCATGAATTATGAACACCAAA

Found at i:8494 original size:89 final size:89

Alignment explanation


    Indices: 8355--8518  Score: 256
    Period size: 89  Copynumber: 1.8  Consensus size: 89

       8345 ATCATGGCTG

                       * *                               *           *   *   
       8355 TGATTAAGCATTACTGCATATAATAGAAATTAGAATGTGATACAGGAGCAGTCCTAAGCCTGTCT
          1 TGATTAAGCATCAATGCATATAATAGAAATTAGAATGTGATACAGAAGCAGTCCTAAACCTATCT

                *                   
       8420 CAACTGGTTAGCATCTCATAACTT
         66 CAACAGGTTAGCATCTCATAACTT

                                                     *                *      
       8444 TGATTAAGCATCAATGCATATAATAGAAATTAGAATGTGATCCAGAAGCAGTCCTAAATCTATCT
          1 TGATTAAGCATCAATGCATATAATAGAAATTAGAATGTGATACAGAAGCAGTCCTAAACCTATCT

                      
       8509 CAACAGGTTA
         66 CAACAGGTTA

       8519 TCTTATAATG


Statistics
Matches: 67,  Mismatches: 8, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  89   67  1.00

ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29


Consensus pattern (89 bp):   
TGATTAAGCATCAATGCATATAATAGAAATTAGAATGTGATACAGAAGCAGTCCTAAACCTATCT
CAACAGGTTAGCATCTCATAACTT
Done.