Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016209.1 Corchorus capsularis cultivar CVL-1 contig16230, 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: 9519
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30


Found at i:2629 original size:33 final size:33

Alignment explanation


    Indices: 2587--2651  Score: 112
    Period size: 33  Copynumber: 2.0  Consensus size: 33

       2577 GAAGCCGCGC

                                             
       2587 ACCACCGGCCACACGACTCGACCATGCCCGGCT
          1 ACCACCGGCCACACGACTCGACCATGCCCGGCT

                         *      *           
       2620 ACCACCGGCCACATGACTCGGCCATGCCCGGC
          1 ACCACCGGCCACACGACTCGACCATGCCCGGC

       2652 CACATGACTC


Statistics
Matches: 30,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  33   30  1.00

ACGTcount: A:0.20, C:0.48, G:0.23, T:0.09


Consensus pattern (33 bp):   
ACCACCGGCCACACGACTCGACCATGCCCGGCT

Found at i:2641 original size:23 final size:23

Alignment explanation


    Indices: 2624--2678  Score: 74
    Period size: 23  Copynumber: 2.4  Consensus size: 23

       2614 CCGGCTACCA

                                 * 
       2624 CCGGCCACATGACTCGGCCATGC
          1 CCGGCCACATGACTCGGCCATCC

                            *    **
       2647 CCGGCCACATGACTCGACCATGT
          1 CCGGCCACATGACTCGGCCATCC

                     
       2670 CCGGCCACA
          1 CCGGCCACA

       2679 ACCGGCCACA


Statistics
Matches: 30,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  23   30  1.00

ACGTcount: A:0.20, C:0.44, G:0.24, T:0.13


Consensus pattern (23 bp):   
CCGGCCACATGACTCGGCCATCC

Found at i:9499 original size:1 final size:1

Alignment explanation


    Indices: 9493--9519  Score: 54
    Period size: 1  Copynumber: 27.0  Consensus size: 1

       9483 GCTCGCTGGG

                                       
       9493 TTTTTTTTTTTTTTTTTTTTTTTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   26  1.00

ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00


Consensus pattern (1 bp):   
T

Done.