Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023023.1 Corchorus olitorius cultivar O-4 contig23056, 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: 15323
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32


Found at i:1129 original size:21 final size:22

Alignment explanation


    Indices: 1104--1151  Score: 89
    Period size: 22  Copynumber: 2.2  Consensus size: 22

       1094 TAAAACCTAA

                                  
       1104 TAATAG-AAACTATAAAAACAT
          1 TAATAGAAAACTATAAAAACAT

                                  
       1125 TAATAGAAAACTATAAAAACAT
          1 TAATAGAAAACTATAAAAACAT

                 
       1147 TAATA
          1 TAATA

       1152 AAGATTGTGC


Statistics
Matches: 26,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  21    6  0.23
  22   20  0.77

ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25


Consensus pattern (22 bp):   
TAATAGAAAACTATAAAAACAT

Found at i:2214 original size:93 final size:93

Alignment explanation


    Indices: 2114--2284  Score: 279
    Period size: 93  Copynumber: 1.8  Consensus size: 93

       2104 AGTAATTTGG

                         *          *                       *             ** 
       2114 TAAAAATAAAATAGGTATAAGGATTTTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTA
          1 TAAAAATAAAATAAGTATAAGGATATTAGATTTAATTAAATAAAAATAAAGTTTTTAGTTGACCA

                                        
       2179 AAACTATAAAAGTAAAATAGTGAAATGA
         66 AAACTATAAAAGTAAAATAGTGAAATGA

                          *                                                  
       2207 TAAAAATAAAATAATTATAAGGATATTAGATTTAATTAAATAAAAATAAAGTTTTTAGTTGACCA
          1 TAAAAATAAAATAAGTATAAGGATATTAGATTTAATTAAATAAAAATAAAGTTTTTAGTTGACCA

               *         
       2272 AAATTATAAAAGT
         66 AAACTATAAAAGT

       2285 TTAAACATGT


Statistics
Matches: 71,  Mismatches: 7, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  93   71  1.00

ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33


Consensus pattern (93 bp):   
TAAAAATAAAATAAGTATAAGGATATTAGATTTAATTAAATAAAAATAAAGTTTTTAGTTGACCA
AAACTATAAAAGTAAAATAGTGAAATGA

Done.