Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024009.1 Corchorus olitorius cultivar O-4 contig24042, 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: 9644
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29


Found at i:3028 original size:22 final size:21

Alignment explanation


    Indices: 2992--3033  Score: 59
    Period size: 22  Copynumber: 2.0  Consensus size: 21

       2982 GAGAAACAAA

                                  
       2992 ATTTTTTTTATGACGCAAAAAT
          1 ATTTTTTTTATGACG-AAAAAT

                                 
       3014 ATTTTTTTT-TCGACGAAAAA
          1 ATTTTTTTTAT-GACGAAAAA

       3034 CACAGAACAA


Statistics
Matches: 19,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  21    6  0.32
  22   13  0.68

ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45


Consensus pattern (21 bp):   
ATTTTTTTTATGACGAAAAAT

Found at i:3480 original size:16 final size:15

Alignment explanation


    Indices: 3442--3483  Score: 59
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       3432 ACAGAGATTG

                            
       3442 ACAGAAAGA-AATTAA
          1 ACAGAAA-ACAATTAA

                           
       3457 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
       3472 ACTAGAAAACAA
          1 AC-AGAAAACAA

       3484 AGCAAAGTAA


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

Matches are distributed among these distances:
  14    1  0.04
  15   15  0.60
  16    9  0.36

ACGTcount: A:0.67, C:0.12, G:0.10, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA

Found at i:4262 original size:11 final size:11

Alignment explanation


    Indices: 4246--4271  Score: 52
    Period size: 11  Copynumber: 2.4  Consensus size: 11

       4236 CCTTTGCCTA

                       
       4246 AAAACTAGAAG
          1 AAAACTAGAAG

                       
       4257 AAAACTAGAAG
          1 AAAACTAGAAG

                
       4268 AAAA
          1 AAAA

       4272 GAAATTATTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   15  1.00

ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08


Consensus pattern (11 bp):   
AAAACTAGAAG
Done.