Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024642.1 Corchorus olitorius cultivar O-4 contig24675, 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: 4943
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36


Found at i:4658 original size:22 final size:22

Alignment explanation


    Indices: 4626--4667  Score: 68
    Period size: 21  Copynumber: 1.9  Consensus size: 22

       4616 AAAAATTGCA

                                   
       4626 TTTTTGTTTGCATATTTTTTTTC
          1 TTTTTGTTTGCAT-TTTTTTTTC

                                
       4649 TTTTTG-TTGCATTTTTTTT
          1 TTTTTGTTTGCATTTTTTTT

       4668 GTTTGCATGC


Statistics
Matches: 19,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  21    7  0.37
  22    6  0.32
  23    6  0.32

ACGTcount: A:0.07, C:0.07, G:0.10, T:0.76


Consensus pattern (22 bp):   
TTTTTGTTTGCATTTTTTTTTC

Found at i:4678 original size:19 final size:19

Alignment explanation


    Indices: 4626--4680  Score: 53
    Period size: 19  Copynumber: 2.9  Consensus size: 19

       4616 AAAAATTGCA

                                
       4626 TTTTTGTTTGCAT--ATTTT
          1 TTTTTGTTTGCATGCA-TTT

                  *     *       
       4644 TTTTCTTTTTG-TTGCATTT
          1 TTTT-TGTTTGCATGCATTT

                              
       4663 TTTTTGTTTGCATGCATT
          1 TTTTTGTTTGCATGCATT

       4681 GCATTTGCAT


Statistics
Matches: 29,  Mismatches: 4, Indels: 7
        0.73            0.10        0.17

Matches are distributed among these distances:
  18   10  0.34
  19   18  0.62
  20    1  0.03

ACGTcount: A:0.09, C:0.09, G:0.13, T:0.69


Consensus pattern (19 bp):   
TTTTTGTTTGCATGCATTT
Done.