Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015898.1 Corchorus olitorius cultivar O-4 contig15931, 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: 6883
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35


Found at i:4935 original size:17 final size:16

Alignment explanation


    Indices: 4881--4931  Score: 66
    Period size: 17  Copynumber: 3.1  Consensus size: 16

       4871 ATCACCCCCC

                   *   *     
       4881 AGATCACTAGTAATCTA
          1 AGATCACCAGTGATC-A

                             
       4898 AGATCACCAGTGATGCA
          1 AGATCACCAGTGAT-CA

                            
       4915 AGATCACCAGTGATCA
          1 AGATCACCAGTGATCA

             
       4931 A
          1 A

       4932 AGATTACATG


Statistics
Matches: 31,  Mismatches: 2, Indels: 3
        0.86            0.06        0.08

Matches are distributed among these distances:
  16    3  0.10
  17   27  0.87
  18    1  0.03

ACGTcount: A:0.39, C:0.22, G:0.18, T:0.22


Consensus pattern (16 bp):   
AGATCACCAGTGATCA

Found at i:5077 original size:12 final size:13

Alignment explanation


    Indices: 5048--5080  Score: 50
    Period size: 12  Copynumber: 2.6  Consensus size: 13

       5038 GGGTGATCTG

                       * 
       5048 AGATCACCTACCA
          1 AGATCACCTACAA

                         
       5061 AGATCACC-ACAA
          1 AGATCACCTACAA

                    
       5073 AGATCACC
          1 AGATCACC

       5081 CCCAACCAAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  12   11  0.58
  13    8  0.42

ACGTcount: A:0.42, C:0.36, G:0.09, T:0.12


Consensus pattern (13 bp):   
AGATCACCTACAA
Done.