Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016679.1 Corchorus olitorius cultivar O-4 contig16712, 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: 3315
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27


Found at i:3265 original size:14 final size:15

Alignment explanation


    Indices: 3248--3289  Score: 52
    Period size: 14  Copynumber: 2.9  Consensus size: 15

       3238 TTTCCTTATT

                           
       3248 TTCCTTTT-TTTTCC
          1 TTCCTTTTCTTTTCC

                           
       3262 TTCCTTTTCTTTT-C
          1 TTCCTTTTCTTTTCC

              *      *    
       3276 TTTCTTTTCCTTTC
          1 TTCCTTTTCTTTTC

       3290 TATTTTTCTT


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  14   20  0.83
  15    4  0.17

ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71


Consensus pattern (15 bp):   
TTCCTTTTCTTTTCC

Found at i:3302 original size:13 final size:13

Alignment explanation


    Indices: 3266--3311  Score: 65
    Period size: 13  Copynumber: 3.5  Consensus size: 13

       3256 TTTTCCTTCC

                       * 
       3266 TTTTCTTTTCTTT
          1 TTTTCTTTTCTAT

                  *       
       3279 CTTTTCCTTTCTAT
          1 -TTTTCTTTTCTAT

                         
       3293 TTTTCTTTTCTAT
          1 TTTTCTTTTCTAT

                  
       3306 TTTTCT
          1 TTTTCT

       3312 CTTC


Statistics
Matches: 29,  Mismatches: 3, Indels: 1
        0.88            0.09        0.03

Matches are distributed among these distances:
  13   18  0.62
  14   11  0.38

ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76


Consensus pattern (13 bp):   
TTTTCTTTTCTAT
Done.