Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011858.1 Corchorus olitorius cultivar O-4 contig11891, 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: 3769
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33


Found at i:1036 original size:11 final size:11

Alignment explanation


    Indices: 1015--1048  Score: 50
    Period size: 11  Copynumber: 3.0  Consensus size: 11

       1005 GTATTTTCTT

                        
       1015 TTTTATTTTTCC
          1 TTTT-TTTTTCC

                       
       1027 TTTTTTTTTCC
          1 TTTTTTTTTCC

              *        
       1038 TTCTTTTTTCC
          1 TTTTTTTTTCC

       1049 CTGTTTAACC


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  11   17  0.81
  12    4  0.19

ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76


Consensus pattern (11 bp):   
TTTTTTTTTCC

Found at i:3397 original size:35 final size:35

Alignment explanation


    Indices: 3356--3630  Score: 469
    Period size: 35  Copynumber: 7.9  Consensus size: 35

       3346 TGAGTTCATA

                          *            *       
       3356 TTGAAGATGCTACATCGAGTCATCTGACTTTGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                                               
       3391 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                                          *    
       3426 TTGAAGATGCTACACCGAGTCATCTGAATTCGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                              *          *     
       3461 TTGAAGATGCTACACCGAATCATCTGAATCTGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                       *  *                    
       3496 TTGAAGATGCTGCATCGAGTCATCTGAATTTGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                                         *     
       3531 TTGAAGATGCTACACCGAGTCATCTGAATCTGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                       *                       
       3566 TTGAAGATGCTGCACCGAGTCATCTGAATTTGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                                          
       3601 TTGAAGATGCTACACCGAGTCATCTGAATT
          1 TTGAAGATGCTACACCGAGTCATCTGAATT

       3631 CCTGAGAATT


Statistics
Matches: 224,  Mismatches: 16, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  35  224  1.00

ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33


Consensus pattern (35 bp):   
TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

Done.