Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020007.1 Corchorus olitorius cultivar O-4 contig20040, 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: 2247
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34


Found at i:738 original size:18 final size:17

Alignment explanation


    Indices: 715--752  Score: 67
    Period size: 18  Copynumber: 2.2  Consensus size: 17

        705 CCCAAATTAC

                              
        715 TTATGGAAATTAGGGAAA
          1 TTATGGAAATTA-GGAAA

                             
        733 TTATGGAAATTAGGAAA
          1 TTATGGAAATTAGGAAA

               
        750 TTA
          1 TTA

        753 AATGAATTAA


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  17    8  0.40
  18   12  0.60

ACGTcount: A:0.45, C:0.00, G:0.24, T:0.32


Consensus pattern (17 bp):   
TTATGGAAATTAGGAAA

Found at i:750 original size:8 final size:9

Alignment explanation


    Indices: 719--752  Score: 52
    Period size: 9  Copynumber: 3.9  Consensus size: 9

        709 AATTACTTAT

                     
        719 GGAAATTAG
          1 GGAAATTAG

                    *
        728 GGAAATTAT
          1 GGAAATTAG

                     
        737 GGAAATTA-
          1 GGAAATTAG

                    
        745 GGAAATTA
          1 GGAAATTA

        753 AATGAATTAA


Statistics
Matches: 24,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
   8    8  0.33
   9   16  0.67

ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26


Consensus pattern (9 bp):   
GGAAATTAG
Done.