Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023677.1 Corchorus olitorius cultivar O-4 contig23710, 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: 3082
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30


Found at i:803 original size:18 final size:18

Alignment explanation


    Indices: 780--814  Score: 61
    Period size: 18  Copynumber: 1.9  Consensus size: 18

        770 CCCAAATTAC

                      *       
        780 TTATGGAAATTAGGAAAA
          1 TTATGGAAATCAGGAAAA

                             
        798 TTATGGAAATCAGGAAA
          1 TTATGGAAATCAGGAAA

        815 TTAATTGAAT


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:0.49, C:0.03, G:0.23, T:0.26


Consensus pattern (18 bp):   
TTATGGAAATCAGGAAAA

Found at i:2170 original size:49 final size:47

Alignment explanation


    Indices: 2095--2198  Score: 145
    Period size: 49  Copynumber: 2.1  Consensus size: 47

       2085 CAAGCAATCA

                                             **  *          
       2095 TTTACTTTTTACTGCACTTTTTCTCAATTTTTACTACGAAATTGAACT
          1 TTTA-TTTTTACTGCACTTTTTCTCAATTTTTAAGACAAAATTGAACT

                                                          *  
       2143 TTTATTTTTACTTGCATCTTTTTCTCAATTTTTAAGACAAAATTGATCT
          1 TTTATTTTTAC-TGCA-CTTTTTCTCAATTTTTAAGACAAAATTGAACT

                   
       2192 TTTATTT
          1 TTTATTT

       2199 GCTGCACTAG


Statistics
Matches: 50,  Mismatches: 4, Indels: 3
        0.88            0.07        0.05

Matches are distributed among these distances:
  47    7  0.14
  48    8  0.16
  49   35  0.70

ACGTcount: A:0.25, C:0.15, G:0.06, T:0.54


Consensus pattern (47 bp):   
TTTATTTTTACTGCACTTTTTCTCAATTTTTAAGACAAAATTGAACT
Done.