Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008797.1 Corchorus olitorius cultivar O-4 contig08824, 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: 1853
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40


Found at i:1643 original size:6 final size:6

Alignment explanation


    Indices: 1634--1690  Score: 78
    Period size: 6  Copynumber: 8.8  Consensus size: 6

       1624 ATTAAATTTA

                                                                       
       1634 TATATC TATATC TATATC TATATAC TATATATC TATATC TATATC TATATAC
          1 TATATC TATATC TATATC TATAT-C --TATATC TATATC TATATC TATAT-C

                 
       1686 TATAT
          1 TATAT

       1691 AAGTCTAAAC


Statistics
Matches: 47,  Mismatches: 0, Indels: 7
        0.87            0.00        0.13

Matches are distributed among these distances:
   6   34  0.72
   7    7  0.15
   8    1  0.02
   9    5  0.11

ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49


Consensus pattern (6 bp):   
TATATC

Found at i:1662 original size:27 final size:27

Alignment explanation


    Indices: 1632--1691  Score: 120
    Period size: 27  Copynumber: 2.2  Consensus size: 27

       1622 TTATTAAATT

                                       
       1632 TATATATCTATATCTATATCTATATAC
          1 TATATATCTATATCTATATCTATATAC

                                       
       1659 TATATATCTATATCTATATCTATATAC
          1 TATATATCTATATCTATATCTATATAC

                  
       1686 TATATA
          1 TATATA

       1692 AGTCTAAACT


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  27   33  1.00

ACGTcount: A:0.38, C:0.13, G:0.00, T:0.48


Consensus pattern (27 bp):   
TATATATCTATATCTATATCTATATAC

Found at i:1691 original size:21 final size:18

Alignment explanation


    Indices: 1634--1690  Score: 78
    Period size: 21  Copynumber: 2.9  Consensus size: 18

       1624 ATTAAATTTA

                              
       1634 TATATCTATATCTATATC
          1 TATATCTATATCTATATC

                                 
       1652 TATATACTATATATCTATATC
          1 TATAT-C--TATATCTATATC

                              
       1673 TATATCTATATACTATAT
          1 TATATCTATAT-CTATAT

       1691 AAGTCTAAAC


Statistics
Matches: 35,  Mismatches: 0, Indels: 7
        0.83            0.00        0.17

Matches are distributed among these distances:
  18   10  0.29
  19    7  0.20
  20    1  0.03
  21   17  0.49

ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49


Consensus pattern (18 bp):   
TATATCTATATCTATATC
Done.