Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019763.1 Corchorus olitorius cultivar O-4 contig19796, 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: 32070
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31


Found at i:7901 original size:14 final size:14

Alignment explanation


    Indices: 7882--7908  Score: 54
    Period size: 14  Copynumber: 1.9  Consensus size: 14

       7872 TAGTTTTTTG

                          
       7882 TGTGTGAGAGAGAT
          1 TGTGTGAGAGAGAT

                         
       7896 TGTGTGAGAGAGA
          1 TGTGTGAGAGAGA

       7909 AAAAGTTGAA


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   13  1.00

ACGTcount: A:0.30, C:0.00, G:0.44, T:0.26


Consensus pattern (14 bp):   
TGTGTGAGAGAGAT

Found at i:28451 original size:28 final size:28

Alignment explanation


    Indices: 28411--28466  Score: 94
    Period size: 28  Copynumber: 2.0  Consensus size: 28

      28401 TCTGGCATCA

                              *  *      
      28411 GCAACTAAACAAATCTATGAATCCAAAG
          1 GCAACTAAACAAATCTATCAACCCAAAG

                                        
      28439 GCAACTAAACAAATCTATCAACCCAAAG
          1 GCAACTAAACAAATCTATCAACCCAAAG

      28467 AAGACTTGAC


Statistics
Matches: 26,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  28   26  1.00

ACGTcount: A:0.50, C:0.25, G:0.09, T:0.16


Consensus pattern (28 bp):   
GCAACTAAACAAATCTATCAACCCAAAG

Found at i:29485 original size:50 final size:50

Alignment explanation


    Indices: 29410--29506  Score: 185
    Period size: 50  Copynumber: 1.9  Consensus size: 50

      29400 ATACTTAGAG

                                                              
      29410 AACCCACTCCAAGCATTCCAATACTGGAATTAAACTTTTTACTAAAAGAA
          1 AACCCACTCCAAGCATTCCAATACTGGAATTAAACTTTTTACTAAAAGAA

                                           *               
      29460 AACCCACTCCAAGCATTCCAATACTGGAATTTAACTTTTTACTAAAA
          1 AACCCACTCCAAGCATTCCAATACTGGAATTAAACTTTTTACTAAAA

      29507 TCATCTAAAC


Statistics
Matches: 46,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  50   46  1.00

ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28


Consensus pattern (50 bp):   
AACCCACTCCAAGCATTCCAATACTGGAATTAAACTTTTTACTAAAAGAA
Done.