Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017500.1 Corchorus olitorius cultivar O-4 contig17533, 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: 9999
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32


Found at i:6385 original size:27 final size:27

Alignment explanation


    Indices: 6348--6409  Score: 97
    Period size: 27  Copynumber: 2.3  Consensus size: 27

       6338 TACTAGAGAT

                 *           *         
       6348 CACCACCATTGCCTCCTTCACTGCCAC
          1 CACCAACATTGCCTCCTCCACTGCCAC

              *                        
       6375 CATCAACATTGCCTCCTCCACTGCCAC
          1 CACCAACATTGCCTCCTCCACTGCCAC

                    
       6402 CACCAACA
          1 CACCAACA

       6410 AATCCTCCAC


Statistics
Matches: 31,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  27   31  1.00

ACGTcount: A:0.24, C:0.50, G:0.06, T:0.19


Consensus pattern (27 bp):   
CACCAACATTGCCTCCTCCACTGCCAC

Found at i:8301 original size:37 final size:37

Alignment explanation


    Indices: 8251--8322  Score: 135
    Period size: 37  Copynumber: 1.9  Consensus size: 37

       8241 AAAAAAAAAC

                                                 
       8251 AAAAGAACCTGTATCGATCAAGCAACATTCACGTAAG
          1 AAAAGAACCTGTATCGATCAAGCAACATTCACGTAAG

                   *                           
       8288 AAAAGAAGCTGTATCGATCAAGCAACATTCACGTA
          1 AAAAGAACCTGTATCGATCAAGCAACATTCACGTA

       8323 CGTATGCTTG


Statistics
Matches: 34,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  37   34  1.00

ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19


Consensus pattern (37 bp):   
AAAAGAACCTGTATCGATCAAGCAACATTCACGTAAG

Found at i:8394 original size:2 final size:2

Alignment explanation


    Indices: 8381--8412  Score: 55
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       8371 GAATAGTCTA

                   *                                       
       8381 AT AT AC 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

       8413 GTGGTATATG


Statistics
Matches: 28,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   2   28  1.00

ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47


Consensus pattern (2 bp):   
AT

Done.