Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024335.1 Corchorus olitorius cultivar O-4 contig24368, 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: 24092
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31


Found at i:6702 original size:6 final size:6

Alignment explanation


    Indices: 6691--6739  Score: 89
    Period size: 6  Copynumber: 8.2  Consensus size: 6

       6681 TCATTAGGAA

                                                               *   
       6691 GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTGTTT
          1 GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT

             
       6739 G
          1 G

       6740 GTGATTACTG


Statistics
Matches: 42,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
   6   42  1.00

ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80


Consensus pattern (6 bp):   
GTTTTT

Found at i:16714 original size:2 final size:2

Alignment explanation


    Indices: 16707--16731  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

      16697 TATGCTAATA

                                                 
      16707 AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT A

      16732 CTATTTTAAA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:17157 original size:19 final size:20

Alignment explanation


    Indices: 17117--17159  Score: 54
    Period size: 19  Copynumber: 2.2  Consensus size: 20

      17107 TCTAACGTGC

                 *              
      17117 AATTATTTTATTTGACTTAT
          1 AATTAATTTATTTGACTTAT

                                 
      17137 AATTAATTT-TTTG-CTTGAT
          1 AATTAATTTATTTGACTT-AT

                
      17156 AATT
          1 AATT

      17160 GTAACTCTTG


Statistics
Matches: 21,  Mismatches: 1, Indels: 3
        0.84            0.04        0.12

Matches are distributed among these distances:
  18    3  0.14
  19   10  0.48
  20    8  0.38

ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58


Consensus pattern (20 bp):   
AATTAATTTATTTGACTTAT
Done.