Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013408.1 Corchorus olitorius cultivar O-4 contig13441, 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: 2956
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31


Found at i:898 original size:15 final size:16

Alignment explanation


    Indices: 867--906  Score: 73
    Period size: 15  Copynumber: 2.6  Consensus size: 16

        857 TTACTCTGCT

                            
        867 TTGTTTTCTAGTTTAA
          1 TTGTTTTCTAGTTTAA

                            
        883 TTGTTTTCTA-TTTAA
          1 TTGTTTTCTAGTTTAA

                     
        898 TTGTTTTCT
          1 TTGTTTTCT

        907 GTCAATCTCT


Statistics
Matches: 24,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  15   14  0.58
  16   10  0.42

ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68


Consensus pattern (16 bp):   
TTGTTTTCTAGTTTAA

Found at i:1149 original size:29 final size:29

Alignment explanation


    Indices: 1076--1147  Score: 126
    Period size: 29  Copynumber: 2.4  Consensus size: 29

       1066 TTTGGCGCCG

                                         
       1076 TTGCCGGGGAAGGGAACTTTTTCTGGTAT
          1 TTGCCGGGGAAGGGAACTTTTTCTGGTAT

                                       * 
       1105 TTGCCGGGGAAGGGAACTTTTTCTGGTTT
          1 TTGCCGGGGAAGGGAACTTTTTCTGGTAT

                          
       1134 TTGCCAGGGGAAGG
          1 TTGCC-GGGGAAGG

       1148 AAAATAGACT


Statistics
Matches: 41,  Mismatches: 1, Indels: 1
        0.95            0.02        0.02

Matches are distributed among these distances:
  29   33  0.80
  30    8  0.20

ACGTcount: A:0.17, C:0.14, G:0.38, T:0.32


Consensus pattern (29 bp):   
TTGCCGGGGAAGGGAACTTTTTCTGGTAT
Done.