Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012067.1 Corchorus olitorius cultivar O-4 contig12100, 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: 18066
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35


Found at i:5129 original size:3 final size:3

Alignment explanation


    Indices: 5121--5152  Score: 64
    Period size: 3  Copynumber: 10.7  Consensus size: 3

       5111 AGATATAATT

                                                      
       5121 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
          1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA

       5153 TAGTATTTCA


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   29  1.00

ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34


Consensus pattern (3 bp):   
TAA

Found at i:6091 original size:1 final size:1

Alignment explanation


    Indices: 6085--6110  Score: 52
    Period size: 1  Copynumber: 26.0  Consensus size: 1

       6075 CTATATTTAT

                                      
       6085 AAAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAA

       6111 GTCAAGTTAC


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   25  1.00

ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00


Consensus pattern (1 bp):   
A

Found at i:15972 original size:2 final size:2

Alignment explanation


    Indices: 15965--16003  Score: 78
    Period size: 2  Copynumber: 19.5  Consensus size: 2

      15955 AAGTCCAAAG

                                                                      
      15965 AT AT AT AT AT 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 AT AT AT AT AT A

      16004 CGTACTTTTC


Statistics
Matches: 37,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   37  1.00

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
AT

Done.