Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021069.1 Corchorus olitorius cultivar O-4 contig21102, 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: 1941
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28


Found at i:1235 original size:76 final size:76

Alignment explanation


    Indices: 1098--1248  Score: 182
    Period size: 76  Copynumber: 2.0  Consensus size: 76

       1088 ACAAGGATCC

                                                               *           * 
       1098 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCTTGAGAACCCAGGT
          1 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT

                       
       1163 GGGCAGTGTCA
         66 GGGCAGTGTCA

                    *     *              *                            **     
       1174 CGACTCCAGCTGGGTGCCCACATGGTTTGTC-TGAAG-ACCCATGT-GTTTCGCCTGATCACCCA
          1 CGACTCCACCTGGGCGCCCACATGG-TTGCCTTG-AGCACCCATGTGGTTT-GCCTGAGAACCCA

                   *     
       1236 GATGGGCTGTGTC
         63 GATGGGCAGTGTC

       1249 TTAGCTCATC


Statistics
Matches: 64,  Mismatches: 8, Indels: 6
        0.82            0.10        0.08

Matches are distributed among these distances:
  75    4  0.06
  76   54  0.84
  77    6  0.09

ACGTcount: A:0.17, C:0.30, G:0.29, T:0.25


Consensus pattern (76 bp):   
CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT
GGGCAGTGTCA

Found at i:1810 original size:67 final size:67

Alignment explanation


    Indices: 1702--1941  Score: 462
    Period size: 67  Copynumber: 3.6  Consensus size: 67

       1692 ATTTTAGAAG

                                                                             
       1702 TACACCGGAAGACGGTTTGCTAGAAAGAATTTTCAAATGTTGATTGGAAGACAATCTCATTAAGG
          1 TACACCGGAAGACGGTTTGCTAGAAAGAATTTTCAAATGTTGATTGGAAGACAATCTCATTAAGG

              
       1767 AA
         66 AA

                                                                             
       1769 TACACCGGAAGACGGTTTGCTAGAAAGAATTTTCAAATGTTGATTGGAAGACAATCTCATTAAGG
          1 TACACCGGAAGACGGTTTGCTAGAAAGAATTTTCAAATGTTGATTGGAAGACAATCTCATTAAGG

              
       1834 AA
         66 AA

                   *          *                                              
       1836 TACACCGAAAGACGGTTTACTAGAAAGAATTTTCAAATGTTGATTGGAAGACAATCTCATTAAGG
          1 TACACCGGAAGACGGTTTGCTAGAAAGAATTTTCAAATGTTGATTGGAAGACAATCTCATTAAGG

              
       1901 AA
         66 AA

                                                   
       1903 TACACCGGAAGACGGTTTGCTAGAAAGAATTTTCAAATG
          1 TACACCGGAAGACGGTTTGCTAGAAAGAATTTTCAAATG


Statistics
Matches: 169,  Mismatches: 4, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  67  169  1.00

ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27


Consensus pattern (67 bp):   
TACACCGGAAGACGGTTTGCTAGAAAGAATTTTCAAATGTTGATTGGAAGACAATCTCATTAAGG
AA
Done.