Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010383.1 Corchorus olitorius cultivar O-4 contig10415, 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, 996

Length: 1661
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33


Found at i:478 original size:1 final size:1

Alignment explanation


    Indices: 472--589  Score: 101
    Period size: 1  Copynumber: 118.0  Consensus size: 1

        462 TTCTTATAAA

                   * *         *       *       *       *       *       *     
        472 TTTTTTTCTGTTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT

              *       *       *       *      *     *   *         
        537 TTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTGTTTTTGTTTGTTTTTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT

        590 GGAAGATCAG


Statistics
Matches: 87,  Mismatches: 30, Indels: 0
        0.74            0.26        0.00

Matches are distributed among these distances:
   1   87  1.00

ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87


Consensus pattern (1 bp):   
T

Found at i:495 original size:8 final size:8

Alignment explanation


    Indices: 484--587  Score: 183
    Period size: 8  Copynumber: 12.9  Consensus size: 8

        474 TTTTTCTGTT

                    
        484 TTTTTTTG
          1 TTTTTTTG

                    
        492 TTTTTTTG
          1 TTTTTTTG

                    
        500 TTTTTTTG
          1 TTTTTTTG

                    
        508 TTTTTTTG
          1 TTTTTTTG

                    
        516 TTTTTTTG
          1 TTTTTTTG

                    
        524 TTTTTTTG
          1 TTTTTTTG

                    
        532 TTTTTTTG
          1 TTTTTTTG

                    
        540 TTTTTTTG
          1 TTTTTTTG

                    
        548 TTTTTTTG
          1 TTTTTTTG

                    
        556 TTTTTTTG
          1 TTTTTTTG

                    
        564 -TTTTTTG
          1 TTTTTTTG

                      
        571 TTTTTGTTTG
          1 -TTTT-TTTG

                   
        581 TTTTTTT
          1 TTTTTTT

        588 TTGGAAGATC


Statistics
Matches: 93,  Mismatches: 0, Indels: 6
        0.94            0.00        0.06

Matches are distributed among these distances:
   7    7  0.08
   8   75  0.81
   9    7  0.08
  10    4  0.04

ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88


Consensus pattern (8 bp):   
TTTTTTTG

Done.