Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001463.1 Corchorus capsularis cultivar CVL-1 contig01463, 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: 7020
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36


Found at i:1814 original size:2 final size:2

Alignment explanation


    Indices: 1807--1838  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       1797 CTATTGTATC

                                                           
       1807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       1839 CGAGTATTTT


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   30  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:3412 original size:27 final size:27

Alignment explanation


    Indices: 3364--3441  Score: 84
    Period size: 27  Copynumber: 2.9  Consensus size: 27

       3354 TTACTCTCTC

                      *  *   *      *  
       3364 TGTCCCTTTTCATATGTTGGTTTTGCT
          1 TGTCCCTTTTTATCTGTCGGTTTTACT

                *                    * 
       3391 TGTCTCTTTTTATCTGTCGGTTTTATT
          1 TGTCCCTTTTTATCTGTCGGTTTTACT

                           *   *    
       3418 TGTCCCTTTTTATCTTTCGTTTTT
          1 TGTCCCTTTTTATCTGTCGGTTTT

       3442 TGACGCAAAA


Statistics
Matches: 42,  Mismatches: 9, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  27   42  1.00

ACGTcount: A:0.06, C:0.18, G:0.14, T:0.62


Consensus pattern (27 bp):   
TGTCCCTTTTTATCTGTCGGTTTTACT

Found at i:6693 original size:2 final size:2

Alignment explanation


    Indices: 6686--6715  Score: 60
    Period size: 2  Copynumber: 15.0  Consensus size: 2

       6676 TTTATTTAAA

                                                        
       6686 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       6716 TGTAGCCCTC


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   28  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.