Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019302.1 Corchorus olitorius cultivar O-4 contig19335, 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: 11332
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:2311 original size:15 final size:15

Alignment explanation


    Indices: 2291--2320  Score: 60
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       2281 GGGGATAATT

                           
       2291 AATCCAAAAACAATC
          1 AATCCAAAAACAATC

                           
       2306 AATCCAAAAACAATC
          1 AATCCAAAAACAATC

       2321 CAACAACAAA


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13


Consensus pattern (15 bp):   
AATCCAAAAACAATC

Found at i:7731 original size:76 final size:76

Alignment explanation


    Indices: 7581--7724  Score: 168
    Period size: 76  Copynumber: 1.9  Consensus size: 76

       7571 ACAAGGACCC

                                                               *           * 
       7581 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCTTGAGAACCCAGGT
          1 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT

                       
       7646 GGGCAGTGTCA
         66 GGGCAGTGTCA

                    **    *              *                            **     
       7657 CGACTCCAGTTGGGTGCCCACATGGTTTGTC-TGAAG-ACCCATGT-GTTTCGCCTGATCACCCA
          1 CGACTCCACCTGGGCGCCCACATGG-TTGCCTTG-AGCACCCATGTGGTTT-GCCTGAGAACCCA

                  
       7719 GATGGG
         63 GATGGG

       7725 TTGTGTCTTA


Statistics
Matches: 57,  Mismatches: 8, Indels: 6
        0.80            0.11        0.08

Matches are distributed among these distances:
  75    4  0.07
  76   47  0.82
  77    6  0.11

ACGTcount: A:0.17, C:0.29, G:0.29, T:0.24


Consensus pattern (76 bp):   
CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT
GGGCAGTGTCA
Done.