Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011864.1 Corchorus olitorius cultivar O-4 contig11897, 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: 3385
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31


Found at i:1736 original size:27 final size:26

Alignment explanation


    Indices: 1678--1727  Score: 84
    Period size: 27  Copynumber: 1.9  Consensus size: 26

       1668 TAGGACGCAG

                                       
       1678 CAAAACTTTTTTTTTTTCGACGCAACA
          1 CAAAACTTTTTTTTTTTC-ACGCAACA

                                    
       1705 CAAAACTTTTTTTTTTT-ACGCAA
          1 CAAAACTTTTTTTTTTTCACGCAA

       1728 GACTCAAAAT


Statistics
Matches: 23,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
  25    6  0.26
  27   17  0.74

ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44


Consensus pattern (26 bp):   
CAAAACTTTTTTTTTTTCACGCAACA

Found at i:2102 original size:16 final size:15

Alignment explanation


    Indices: 2064--2105  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       2054 ACAGAGGTTG

                  *        
       2064 ACAGAACACAATTAA
          1 ACAGAAAACAATTAA

                           
       2079 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
       2094 ACTAGAAAACAA
          1 AC-AGAAAACAA

       2106 AACAAAGTAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.64, C:0.17, G:0.07, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA
Done.