Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016822.1 Corchorus olitorius cultivar O-4 contig16855, 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: 7223
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31


Found at i:1885 original size:16 final size:15

Alignment explanation


    Indices: 1847--1888  Score: 75
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       1837 ACAGAGGTTG

                           
       1847 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                           
       1862 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
       1877 ACTAGAAAACAA
          1 AC-AGAAAACAA

       1889 AACAAAGTAA


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

Matches are distributed among these distances:
  15   17  0.65
  16    9  0.35

ACGTcount: A:0.67, C:0.14, G:0.07, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA

Found at i:5132 original size:21 final size:21

Alignment explanation


    Indices: 5088--5142  Score: 65
    Period size: 21  Copynumber: 2.6  Consensus size: 21

       5078 GGCTTGGAAT

                             *** 
       5088 GGTGATGGCACGGGCATGGTC
          1 GGTGATGGCACGGGCATAACC

                           *     
       5109 GGTGATGGCACGGGCTTAACC
          1 GGTGATGGCACGGGCATAACC

                *        
       5130 GGTGGTGGCACGG
          1 GGTGATGGCACGG

       5143 TGAATGGTGG


Statistics
Matches: 29,  Mismatches: 5, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  21   29  1.00

ACGTcount: A:0.15, C:0.20, G:0.47, T:0.18


Consensus pattern (21 bp):   
GGTGATGGCACGGGCATAACC
Done.