Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004830.1 Corchorus capsularis cultivar CVL-1 contig04848, 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: 3665
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33


Found at i:2208 original size:21 final size:21

Alignment explanation


    Indices: 2182--2225  Score: 61
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       2172 ATATACTGGA

                                 
       2182 TTGCTAAACAACGCCCCATTT
          1 TTGCTAAACAACGCCCCATTT

                  **  *          
       2203 TTGCTATTCACCGCCCCATTT
          1 TTGCTAAACAACGCCCCATTT

              
       2224 TT
          1 TT

       2226 TACGTTTTTT


Statistics
Matches: 20,  Mismatches: 3, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  21   20  1.00

ACGTcount: A:0.20, C:0.34, G:0.09, T:0.36


Consensus pattern (21 bp):   
TTGCTAAACAACGCCCCATTT

Found at i:3599 original size:3 final size:3

Alignment explanation


    Indices: 3583--3650  Score: 122
    Period size: 3  Copynumber: 23.3  Consensus size: 3

       3573 TCACTTGTCC

                                                                           
       3583 AGA AGA A-A AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
          1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA

                                         
       3629 AGA AGA AGA AGA AGA AGA AGA A
          1 AGA AGA AGA AGA AGA AGA AGA A

       3651 AACTTCCATT


Statistics
Matches: 63,  Mismatches: 0, Indels: 4
        0.94            0.00        0.06

Matches are distributed among these distances:
   2    4  0.06
   3   59  0.94

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


Consensus pattern (3 bp):   
AGA

Done.