Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014041.1 Corchorus capsularis cultivar CVL-1 contig14062, 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: 26875
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33


Found at i:7 original size:2 final size:2

Alignment explanation


    Indices: 1--32  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

                                                           
          1 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

         33 TCATATAACA


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:20932 original size:2 final size:2

Alignment explanation


    Indices: 20884--20917  Score: 68
    Period size: 2  Copynumber: 17.0  Consensus size: 2

      20874 ATAGTCACCC

                                                              
      20884 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

      20918 GAATCTTCTT


Statistics
Matches: 32,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   32  1.00

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


Consensus pattern (2 bp):   
TA

Found at i:22695 original size:19 final size:19

Alignment explanation


    Indices: 22671--22710  Score: 55
    Period size: 19  Copynumber: 2.1  Consensus size: 19

      22661 TAGAGGGAGT

                  *             
      22671 AATGAGTAGGCACA-TGAGG
          1 AATGAGGAGGCA-ATTGAGG

                               
      22690 AATGAGGAGGCAATTGAGG
          1 AATGAGGAGGCAATTGAGG

              
      22709 AA
          1 AA

      22711 ATTAGAAAAG


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  18    1  0.05
  19   18  0.95

ACGTcount: A:0.40, C:0.07, G:0.38, T:0.15


Consensus pattern (19 bp):   
AATGAGGAGGCAATTGAGG
Done.