Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012251.1 Corchorus olitorius cultivar O-4 contig12284, 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: 11394
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34


Found at i:8957 original size:11 final size:11

Alignment explanation


    Indices: 8943--8980  Score: 51
    Period size: 11  Copynumber: 3.5  Consensus size: 11

       8933 ATTCATAACA

                       
       8943 AATTTATAATT
          1 AATTTATAATT

                       
       8954 AATTTATAATT
          1 AATTTATAATT

                        
       8965 -ATTTAATAATT
          1 AATTT-ATAATT

            *    
       8976 TATTT
          1 AATTT

       8981 TATATAGGAA


Statistics
Matches: 25,  Mismatches: 0, Indels: 3
        0.89            0.00        0.11

Matches are distributed among these distances:
  10    4  0.16
  11   17  0.68
  12    4  0.16

ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58


Consensus pattern (11 bp):   
AATTTATAATT

Found at i:9640 original size:6 final size:6

Alignment explanation


    Indices: 9621--9665  Score: 65
    Period size: 6  Copynumber: 7.7  Consensus size: 6

       9611 AGAATGATGA

                              *             *                    
       9621 TTAT-T TTATCT TTATAT TTATCT TTATTT TTATCT TTATCT TTAT
          1 TTATCT TTATCT TTATCT TTATCT TTATCT TTATCT TTATCT TTAT

       9666 ATTATACTAA


Statistics
Matches: 35,  Mismatches: 4, Indels: 1
        0.88            0.10        0.03

Matches are distributed among these distances:
   5    4  0.11
   6   31  0.89

ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71


Consensus pattern (6 bp):   
TTATCT

Found at i:9763 original size:22 final size:23

Alignment explanation


    Indices: 9735--9791  Score: 71
    Period size: 22  Copynumber: 2.5  Consensus size: 23

       9725 ATTTTTATGG

                        *        * 
       9735 AATTTTGATAACTACCCTAT-TA
          1 AATTTTGATAACCACCCTATAAA

                           *        
       9757 AATTTTGATAACCACGCTATGAAA
          1 AATTTTGATAACCACCCTAT-AAA

                       
       9781 AATTTTGATAA
          1 AATTTTGATAA

       9792 TTATCTATGA


Statistics
Matches: 30,  Mismatches: 3, Indels: 2
        0.86            0.09        0.06

Matches are distributed among these distances:
  22   18  0.60
  24   12  0.40

ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37


Consensus pattern (23 bp):   
AATTTTGATAACCACCCTATAAA

Done.