Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020247.1 Corchorus olitorius cultivar O-4 contig20280, 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: 3472
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26


Found at i:3351 original size:15 final size:14

Alignment explanation


    Indices: 3326--3370  Score: 54
    Period size: 15  Copynumber: 3.1  Consensus size: 14

       3316 CCTTATTTCC

                       *  
       3326 TTCTTCTTTTTTTT
          1 TTCTTCTTTTTCTT

                           
       3340 TTCTTCCTTTTTCTT
          1 TTCTT-CTTTTTCTT

                       *   
       3355 TTCTTTCTTTTCCTT
          1 TTC-TTCTTTTTCTT

             
       3370 T
          1 T

       3371 ATATTTTTCT


Statistics
Matches: 27,  Mismatches: 2, Indels: 3
        0.84            0.06        0.09

Matches are distributed among these distances:
  14    5  0.19
  15   20  0.74
  16    2  0.07

ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78


Consensus pattern (14 bp):   
TTCTTCTTTTTCTT

Found at i:3370 original size:21 final size:20

Alignment explanation


    Indices: 3321--3370  Score: 64
    Period size: 21  Copynumber: 2.4  Consensus size: 20

       3311 AATTTCCTTA

                   *          * 
       3321 TTTCCTTCTTCTTTTTTTTT
          1 TTTCCTTTTTCTTTTTTTCT

                                  
       3341 TCTTCCTTTTTCTTTTCTTTCT
          1 T-TTCCTTTTTCTTTT-TTTCT

                    
       3363 TTTCCTTT
          1 TTTCCTTT

       3371 ATATTTTTCT


Statistics
Matches: 26,  Mismatches: 2, Indels: 3
        0.84            0.06        0.10

Matches are distributed among these distances:
  20    1  0.04
  21   20  0.77
  22    5  0.19

ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76


Consensus pattern (20 bp):   
TTTCCTTTTTCTTTTTTTCT
Done.