Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009810.1 Corchorus olitorius cultivar O-4 contig09842, 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: 3862
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36


Found at i:1891 original size:31 final size:31

Alignment explanation


    Indices: 1840--1899  Score: 79
    Period size: 31  Copynumber: 1.9  Consensus size: 31

       1830 ATTTAAAAAT

                                            
       1840 ATATATATTCTATGCTAATTT-CTGTTATATC
          1 ATATATATTCTAT-CTAATTTCCTGTTATATC

                                          
       1871 ATATATATTCTAAT-TAAATTTCCTGTTAT
          1 ATATATATTCT-ATCT-AATTTCCTGTTAT

       1900 GTGTACTATA


Statistics
Matches: 26,  Mismatches: 0, Indels: 5
        0.84            0.00        0.16

Matches are distributed among these distances:
  30    1  0.04
  31   16  0.62
  32    9  0.35

ACGTcount: A:0.32, C:0.12, G:0.05, T:0.52


Consensus pattern (31 bp):   
ATATATATTCTATCTAATTTCCTGTTATATC

Found at i:2856 original size:43 final size:43

Alignment explanation


    Indices: 2808--2892  Score: 152
    Period size: 43  Copynumber: 2.0  Consensus size: 43

       2798 GCGTTTGTAA

                                                       
       2808 TCTCTGATTGTTAATTAATGAAACAGATTATTCTAAAAAAAAT
          1 TCTCTGATTGTTAATTAATGAAACAGATTATTCTAAAAAAAAT

                                   **                 
       2851 TCTCTGATTGTTAATTAATGAAAGTGATTATTCTAAAAAAAA
          1 TCTCTGATTGTTAATTAATGAAACAGATTATTCTAAAAAAAA

       2893 AAAAAAGCTT


Statistics
Matches: 40,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  43   40  1.00

ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38


Consensus pattern (43 bp):   
TCTCTGATTGTTAATTAATGAAACAGATTATTCTAAAAAAAAT
Done.