Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007797.1 Corchorus olitorius cultivar O-4 contig07824, 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, 771

Length: 1286
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32


Found at i:259 original size:28 final size:27

Alignment explanation


    Indices: 162--269  Score: 130
    Period size: 27  Copynumber: 4.0  Consensus size: 27

        152 TAAAAATGTG

                        *               
        162 CATG-AAATGACTAAAATGTCCCC-GGA
          1 CATGCAAATGACCAAAATG-CCCCTGGA

            **                *        
        188 TGTGCAAATGACCAAAATACCCCTGGA
          1 CATGCAAATGACCAAAATGCCCCTGGA

                                       
        215 CATGCAAATGACCAAAATGCCCCTGGA
          1 CATGCAAATGACCAAAATGCCCCTGGA

             *   *                      
        242 CCTGAGAAATGACCAAAATGCCCCTGGA
          1 CATG-CAAATGACCAAAATGCCCCTGGA

        270 TGAGTGACCC


Statistics
Matches: 70,  Mismatches: 9, Indels: 4
        0.84            0.11        0.05

Matches are distributed among these distances:
  26    6  0.09
  27   42  0.60
  28   22  0.31

ACGTcount: A:0.37, C:0.27, G:0.19, T:0.17


Consensus pattern (27 bp):   
CATGCAAATGACCAAAATGCCCCTGGA

Found at i:565 original size:35 final size:35

Alignment explanation


    Indices: 524--763  Score: 417
    Period size: 35  Copynumber: 6.9  Consensus size: 35

        514 TGAGTTCATA

                          *            *       
        524 TTGAAGATGCTACATCGAGTCATCTGACTTTGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                                               
        559 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                                          *    
        594 TTGAAGATGCTACACCGAGTCATCTGAATTCGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                       *                       
        629 TTGAAGATGCTGCACCGAGTCATCTGAATTTGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                                         **    
        664 TTGAAGATGCTACACCGAGTCATCTGAATCAGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                       *                       
        699 TTGAAGATGCTGCACCGAGTCATCTGAATTTGTCT
          1 TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

                                          
        734 TTGAAGATGCTACACCGAGTCATCTGAATT
          1 TTGAAGATGCTACACCGAGTCATCTGAATT

        764 CCTAAGAATT


Statistics
Matches: 193,  Mismatches: 12, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  35  193  1.00

ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33


Consensus pattern (35 bp):   
TTGAAGATGCTACACCGAGTCATCTGAATTTGTCT

Done.