Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021095.1 Corchorus olitorius cultivar O-4 contig21128, 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: 22151
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36


Found at i:6774 original size:16 final size:16

Alignment explanation


    Indices: 6753--6786  Score: 68
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       6743 TTACTCTCTG

                            
       6753 TTCTTTCAGTTTGTTT
          1 TTCTTTCAGTTTGTTT

                            
       6769 TTCTTTCAGTTTGTTT
          1 TTCTTTCAGTTTGTTT

              
       6785 TT
          1 TT

       6787 TTTTTCTTCA


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   18  1.00

ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71


Consensus pattern (16 bp):   
TTCTTTCAGTTTGTTT

Found at i:12760 original size:27 final size:27

Alignment explanation


    Indices: 12730--12789  Score: 113
    Period size: 27  Copynumber: 2.3  Consensus size: 27

      12720 CGTATATTTC

                                       
      12730 ATATGAATGTAATTTCTTTTGTAATTA
          1 ATATGAATGTAATTTCTTTTGTAATTA

                                       
      12757 ATATGAATGTAATTTCTTTTGTAATTA
          1 ATATGAATGTAATTTCTTTTGTAATTA

                   
      12784 A-ATGAA
          1 ATATGAA

      12790 ATTTTATGAA


Statistics
Matches: 33,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
  26    5  0.15
  27   28  0.85

ACGTcount: A:0.37, C:0.03, G:0.12, T:0.48


Consensus pattern (27 bp):   
ATATGAATGTAATTTCTTTTGTAATTA

Found at i:17311 original size:13 final size:13

Alignment explanation


    Indices: 17293--17321  Score: 58
    Period size: 13  Copynumber: 2.2  Consensus size: 13

      17283 TAGTTTCCTG

                         
      17293 TTAATAAAATTCT
          1 TTAATAAAATTCT

                         
      17306 TTAATAAAATTCT
          1 TTAATAAAATTCT

               
      17319 TTA
          1 TTA

      17322 CATTGCCTTT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   16  1.00

ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48


Consensus pattern (13 bp):   
TTAATAAAATTCT
Done.