Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015541.1 Corchorus olitorius cultivar O-4 contig15574, 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: 10087
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34


Found at i:2744 original size:2 final size:2

Alignment explanation


    Indices: 2737--2761  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

       2727 TAAATGTAAT

                                                 
       2737 TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA T

       2762 GCAAAGGTGT


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


Consensus pattern (2 bp):   
TA

Found at i:6693 original size:13 final size:14

Alignment explanation


    Indices: 6661--6692  Score: 57
    Period size: 14  Copynumber: 2.4  Consensus size: 14

       6651 TCTTACATGC

                          
       6661 AAAAAA-AAAAAGA
          1 AAAAAAGAAAAAGA

                          
       6674 AAAAAAGAAAAAGA
          1 AAAAAAGAAAAAGA

                 
       6688 AAAAA
          1 AAAAA

       6693 GTTTATATAT


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  13    6  0.33
  14   12  0.67

ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00


Consensus pattern (14 bp):   
AAAAAAGAAAAAGA

Found at i:9937 original size:2 final size:2

Alignment explanation


    Indices: 9930--9965  Score: 72
    Period size: 2  Copynumber: 18.0  Consensus size: 2

       9920 TAATTACTTT

                                                                 
       9930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       9966 CTAACCCATG


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   34  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Done.