Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012700.1 Corchorus olitorius cultivar O-4 contig12733, 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: 14405
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33


Found at i:1880 original size:18 final size:18

Alignment explanation


    Indices: 1853--1887  Score: 61
    Period size: 18  Copynumber: 1.9  Consensus size: 18

       1843 TGATAGGGAA

                              
       1853 TTGTTCATGAACAATTTT
          1 TTGTTCATGAACAATTTT

                 *           
       1871 TTGTTTATGAACAATTT
          1 TTGTTCATGAACAATTT

       1888 CAGTTTTTGT


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51


Consensus pattern (18 bp):   
TTGTTCATGAACAATTTT

Found at i:6952 original size:34 final size:34

Alignment explanation


    Indices: 6914--6980  Score: 98
    Period size: 34  Copynumber: 2.0  Consensus size: 34

       6904 CTCTTACAAT

                       *   *          *       
       6914 CAATGAAGTTACACGGGCCTTCATCATGCCTTTC
          1 CAATGAAGTTAAACGAGCCTTCATCACGCCTTTC

                         *                   
       6948 CAATGAAGTTAAATGAGCCTTCATCACGCCTTT
          1 CAATGAAGTTAAACGAGCCTTCATCACGCCTTT

       6981 ACAAGTTGAG


Statistics
Matches: 29,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  34   29  1.00

ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30


Consensus pattern (34 bp):   
CAATGAAGTTAAACGAGCCTTCATCACGCCTTTC
Done.