Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011889.1 Corchorus capsularis cultivar CVL-1 contig11910, 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: 2610
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26


Found at i:2334 original size:54 final size:54

Alignment explanation


    Indices: 2252--2388  Score: 247
    Period size: 54  Copynumber: 2.5  Consensus size: 54

       2242 GATCAAAGTC

                 *           *                                    
       2252 ACCCGACTGAGCTGCCCTATCATAATAACGGGGGTCAGCATTATTATCATGGTA
          1 ACCCGCCTGAGCTGCCCCATCATAATAACGGGGGTCAGCATTATTATCATGGTA

                                            *                     
       2306 ACCCGCCTGAGCTGCCCCATCATAATAACGGGTGTCAGCATTATTATCATGGTA
          1 ACCCGCCTGAGCTGCCCCATCATAATAACGGGGGTCAGCATTATTATCATGGTA

                                         
       2360 ACCCGCCTGAGCTGCCCCATCATAATAAC
          1 ACCCGCCTGAGCTGCCCCATCATAATAAC

       2389 CGAACCCAGC


Statistics
Matches: 80,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  54   80  1.00

ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24


Consensus pattern (54 bp):   
ACCCGCCTGAGCTGCCCCATCATAATAACGGGGGTCAGCATTATTATCATGGTA

Found at i:2409 original size:54 final size:54

Alignment explanation


    Indices: 2297--2409  Score: 136
    Period size: 54  Copynumber: 2.1  Consensus size: 54

       2287 CAGCATTATT

                                                  * ****     ** **
       2297 ATCATGGTAACCCGCCTGAGCTGCCCCATCATAATAACGGGTGTCAGCATTATT
          1 ATCATGGTAACCCGCCTGAGCTGCCCCATCATAATAACCGAACCCAGCACCACC

                                                               *  
       2351 ATCATGGTAACCCGCCTGAGCTGCCCCATCATAATAACCGAACCCAGCACCCCC
          1 ATCATGGTAACCCGCCTGAGCTGCCCCATCATAATAACCGAACCCAGCACCACC

                 
       2405 ATCAT
          1 ATCAT

       2410 AATAACCGGG


Statistics
Matches: 49,  Mismatches: 10, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  54   49  1.00

ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21


Consensus pattern (54 bp):   
ATCATGGTAACCCGCCTGAGCTGCCCCATCATAATAACCGAACCCAGCACCACC

Done.