Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024514.1 Corchorus olitorius cultivar O-4 contig24547, 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: 7055
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32


Found at i:3982 original size:35 final size:35

Alignment explanation


    Indices: 3933--4073  Score: 212
    Period size: 35  Copynumber: 4.0  Consensus size: 35

       3923 GAATTTCATC

                     *                         
       3933 AAGTTTTTTTAATTGGGAAAGTTCCCACCAGTTTT
          1 AAGTTTTTTAAATTGGGAAAGTTCCCACCAGTTTT

                                               
       3968 AAGTTTTTTAAATTGGGAAAGTTCCCACCAGTTTT
          1 AAGTTTTTTAAATTGGGAAAGTTCCCACCAGTTTT

                *                      *        
       4003 AAGTCTTTTAAATTGGGAAAGTTCCCATCAGCTTTT
          1 AAGTTTTTTAAATTGGGAAAGTTCCCACCAG-TTTT

                    *                   *       
       4039 AAG-TTTTCAAATTGGGAAAGTTCCCATTCAGTTTT
          1 AAGTTTTTTAAATTGGGAAAGTTCCCA-CCAGTTTT

       4074 TCAAAGTTCC


Statistics
Matches: 99,  Mismatches: 5, Indels: 4
        0.92            0.05        0.04

Matches are distributed among these distances:
  35   88  0.89
  36   11  0.11

ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40


Consensus pattern (35 bp):   
AAGTTTTTTAAATTGGGAAAGTTCCCACCAGTTTT

Found at i:4092 original size:21 final size:21

Alignment explanation


    Indices: 4055--4094  Score: 55
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       4045 TCAAATTGGG

                       *         
       4055 AAAGTTCCCATTCAGTTTTTC
          1 AAAGTTCCCATCCAGTTTTTC

                                
       4076 AAAGTTCCCA-CCAAGTTTT
          1 AAAGTTCCCATCC-AGTTTT

       4095 AGTTTTCAAT


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  20    1  0.06
  21   16  0.94

ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38


Consensus pattern (21 bp):   
AAAGTTCCCATCCAGTTTTTC
Done.