Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023472.1 Corchorus olitorius cultivar O-4 contig23505, 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: 7134
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32


Found at i:501 original size:27 final size:27

Alignment explanation


    Indices: 463--558  Score: 138
    Period size: 27  Copynumber: 3.6  Consensus size: 27

        453 GTGATCCTAG

                                 *     
        463 AATGACCAAAATGCCCCTGGACATGCA
          1 AATGACCAAAATGCCCCTGGATATGCA

                                  *   *
        490 AATGACCAAAATGCCCCTGGATGTGCG
          1 AATGACCAAAATGCCCCTGGATATGCA

                                  * ** 
        517 AATGACCAAAATGCCCCTGGATTTTAA
          1 AATGACCAAAATGCCCCTGGATATGCA

                           
        544 AATGACCAAAATGCC
          1 AATGACCAAAATGCC

        559 TCTAGATGAC


Statistics
Matches: 62,  Mismatches: 7, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  27   62  1.00

ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19


Consensus pattern (27 bp):   
AATGACCAAAATGCCCCTGGATATGCA

Found at i:5350 original size:18 final size:18

Alignment explanation


    Indices: 5316--5349  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

       5306 CGGTTCTCTT

                              
       5316 TTTTCCTTTCTTCTTTTC
          1 TTTTCCTTTCTTCTTTTC

                 *           
       5334 TTTTCTTTTCTT-TTTT
          1 TTTTCCTTTCTTCTTTT

       5350 TTTAGGAAAA


Statistics
Matches: 15,  Mismatches: 1, Indels: 1
        0.88            0.06        0.06

Matches are distributed among these distances:
  17    4  0.27
  18   11  0.73

ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79


Consensus pattern (18 bp):   
TTTTCCTTTCTTCTTTTC
Done.