Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013188.1 Corchorus capsularis cultivar CVL-1 contig13209, 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: 16301
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31


Found at i:8058 original size:15 final size:15

Alignment explanation


    Indices: 8038--8070  Score: 66
    Period size: 15  Copynumber: 2.2  Consensus size: 15

       8028 AGTATTCATG

                           
       8038 AAACCTTGTTTGTTA
          1 AAACCTTGTTTGTTA

                           
       8053 AAACCTTGTTTGTTA
          1 AAACCTTGTTTGTTA

               
       8068 AAA
          1 AAA

       8071 GGTTTCTCGG


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   18  1.00

ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42


Consensus pattern (15 bp):   
AAACCTTGTTTGTTA

Found at i:13611 original size:4 final size:4

Alignment explanation


    Indices: 13592--13624  Score: 50
    Period size: 4  Copynumber: 8.2  Consensus size: 4

      13582 AGGTAATACC

                                                      
      13592 ATAA ATACA A-AA ATAA ATAA ATAA ATAA ATAA A
          1 ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA A

      13625 ATGACAGAAA


Statistics
Matches: 27,  Mismatches: 0, Indels: 4
        0.87            0.00        0.13

Matches are distributed among these distances:
   3    2  0.07
   4   23  0.85
   5    2  0.07

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


Consensus pattern (4 bp):   
ATAA

Found at i:14580 original size:3 final size:3

Alignment explanation


    Indices: 14572--14596  Score: 50
    Period size: 3  Copynumber: 8.3  Consensus size: 3

      14562 AGCTGCAATT

                                             
      14572 TTC TTC TTC TTC TTC TTC TTC TTC T
          1 TTC TTC TTC TTC TTC TTC TTC TTC T

      14597 GCTTGGAGAA


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   22  1.00

ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68


Consensus pattern (3 bp):   
TTC

Done.