Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019255.1 Corchorus olitorius cultivar O-4 contig19288, 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: 12463
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29


Found at i:652 original size:6 final size:6

Alignment explanation


    Indices: 641--679  Score: 78
    Period size: 6  Copynumber: 6.5  Consensus size: 6

        631 GATTAGTGTA

                                                         
        641 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAA
          1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAA

        680 TATGCAAAGA


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

Matches are distributed among these distances:
   6   33  1.00

ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31


Consensus pattern (6 bp):   
AAAATT

Found at i:4946 original size:19 final size:18

Alignment explanation


    Indices: 4913--4948  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       4903 TGGAAATAAT

                              
       4913 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
       4931 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

       4949 TAAATCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42


Consensus pattern (18 bp):   
TCTTCAATGGTCTTCAAA

Found at i:12117 original size:13 final size:13

Alignment explanation


    Indices: 12099--12124  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

      12089 CTTGGCATGA

                         
      12099 GTGATGATTTTTG
          1 GTGATGATTTTTG

                         
      12112 GTGATGATTTTTG
          1 GTGATGATTTTTG

      12125 TTGTTACCTT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54


Consensus pattern (13 bp):   
GTGATGATTTTTG
Done.