Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019894.1 Corchorus olitorius cultivar O-4 contig19927, 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: 7241
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36


Found at i:2428 original size:32 final size:32

Alignment explanation


    Indices: 2392--2455  Score: 92
    Period size: 32  Copynumber: 2.0  Consensus size: 32

       2382 AAAGAAGATT

                   *       *    *   *       
       2392 ATATATTTTTTATGTTATATGCTATAAATTAA
          1 ATATATTCTTTATGTCATATACTACAAATTAA

                                            
       2424 ATATATTCTTTATGTCATATACTACAAATTAA
          1 ATATATTCTTTATGTCATATACTACAAATTAA

       2456 TGTAATTTAT


Statistics
Matches: 28,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  32   28  1.00

ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48


Consensus pattern (32 bp):   
ATATATTCTTTATGTCATATACTACAAATTAA

Found at i:3785 original size:60 final size:60

Alignment explanation


    Indices: 3692--3847  Score: 276
    Period size: 60  Copynumber: 2.6  Consensus size: 60

       3682 ATACCCAGGG

                 *                             *                        
       3692 GGTCTTGTTTTGGTAGCTATTTTGGTACTTGGCTTTGCTTTTCTTATTGTTTGAGTTTGA
          1 GGTCTCGTTTTGGTAGCTATTTTGGTACTTGGCTTCGCTTTTCTTATTGTTTGAGTTTGA

                                                         *              
       3752 GGTCTCGTTTTGGTAGCTATTTTGGTACTTGGCTTCGCTTTTCTTGTTGTTTGAGTTTGA
          1 GGTCTCGTTTTGGTAGCTATTTTGGTACTTGGCTTCGCTTTTCTTATTGTTTGAGTTTGA

                                         *      
       3812 GGTCTCGTTTTGGTAGCTATTTTGGTACTGGGCTTC
          1 GGTCTCGTTTTGGTAGCTATTTTGGTACTTGGCTTC

       3848 ATTAACTTGA


Statistics
Matches: 92,  Mismatches: 4, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  60   92  1.00

ACGTcount: A:0.09, C:0.13, G:0.27, T:0.51


Consensus pattern (60 bp):   
GGTCTCGTTTTGGTAGCTATTTTGGTACTTGGCTTCGCTTTTCTTATTGTTTGAGTTTGA

Found at i:4133 original size:6 final size:6

Alignment explanation


    Indices: 4124--4148  Score: 50
    Period size: 6  Copynumber: 4.2  Consensus size: 6

       4114 AAAATTAAGC

                                         
       4124 ATGCCA ATGCCA ATGCCA ATGCCA A
          1 ATGCCA ATGCCA ATGCCA ATGCCA A

       4149 ACATTAACAT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   19  1.00

ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16


Consensus pattern (6 bp):   
ATGCCA

Done.