Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010334.1 Corchorus olitorius cultivar O-4 contig10366, 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: 5141
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35


Found at i:347 original size:30 final size:30

Alignment explanation


    Indices: 313--370  Score: 107
    Period size: 30  Copynumber: 1.9  Consensus size: 30

        303 ACCTACTCAC

                                          
        313 ATATATCATAAGAACCAAGAAAAAAAAACT
          1 ATATATCATAAGAACCAAGAAAAAAAAACT

                            *           
        343 ATATATCATAAGAACCGAGAAAAAAAAA
          1 ATATATCATAAGAACCAAGAAAAAAAAA

        371 AACTCTATAA


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  30   27  1.00

ACGTcount: A:0.64, C:0.12, G:0.09, T:0.16


Consensus pattern (30 bp):   
ATATATCATAAGAACCAAGAAAAAAAAACT

Found at i:373 original size:32 final size:30

Alignment explanation


    Indices: 313--379  Score: 98
    Period size: 30  Copynumber: 2.2  Consensus size: 30

        303 ACCTACTCAC

                              *           
        313 ATATATCATAAGAACCAAGAAAAAAAAACT
          1 ATATATCATAAGAACCAAAAAAAAAAAACT

                                            
        343 ATATATCATAAGAACCGAGAAAAAAAAAAACT
          1 ATATATCATAAGAACC-A-AAAAAAAAAAACT

            *    
        375 CTATA
          1 ATATA

        380 ACTAAAATAT


Statistics
Matches: 33,  Mismatches: 2, Indels: 2
        0.89            0.05        0.05

Matches are distributed among these distances:
  30   16  0.48
  31    1  0.03
  32   16  0.48

ACGTcount: A:0.61, C:0.13, G:0.07, T:0.18


Consensus pattern (30 bp):   
ATATATCATAAGAACCAAAAAAAAAAAACT

Found at i:3594 original size:2 final size:2

Alignment explanation


    Indices: 3587--3615  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

       3577 AATTTAAGAA

                                                       
       3587 AT AT 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 AT AT A

       3616 GTACTGATAA


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

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


Consensus pattern (2 bp):   
AT

Done.