Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020245.1 Corchorus olitorius cultivar O-4 contig20278, 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: 4732
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25


Found at i:1603 original size:39 final size:39

Alignment explanation


    Indices: 1549--1627  Score: 158
    Period size: 39  Copynumber: 2.0  Consensus size: 39

       1539 AGTTAGACCC

                                                   
       1549 AATCAGATATATATTTGAGAAACCAGGATTATCAGGACG
          1 AATCAGATATATATTTGAGAAACCAGGATTATCAGGACG

                                                   
       1588 AATCAGATATATATTTGAGAAACCAGGATTATCAGGACG
          1 AATCAGATATATATTTGAGAAACCAGGATTATCAGGACG

             
       1627 A
          1 A

       1628 TCGGGCTAAT


Statistics
Matches: 40,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  39   40  1.00

ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25


Consensus pattern (39 bp):   
AATCAGATATATATTTGAGAAACCAGGATTATCAGGACG

Found at i:4593 original size:39 final size:39

Alignment explanation


    Indices: 4539--4732  Score: 388
    Period size: 39  Copynumber: 5.0  Consensus size: 39

       4529 ATCTTTCAGT

                                                   
       4539 GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACAG
          1 GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACAG

                                                   
       4578 GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACAG
          1 GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACAG

                                                   
       4617 GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACAG
          1 GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACAG

                                                   
       4656 GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACAG
          1 GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACAG

                                                  
       4695 GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACA
          1 GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACA


Statistics
Matches: 155,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  39  155  1.00

ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34


Consensus pattern (39 bp):   
GCCATCTTTTCAGCATTTATCAAAGTTGGTTGGAAACAG

Done.