Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010623.1 Corchorus olitorius cultivar O-4 contig10655, 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: 2554
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:983 original size:39 final size:40

Alignment explanation


    Indices: 929--1009  Score: 137
    Period size: 39  Copynumber: 2.0  Consensus size: 40

        919 ATACCTAAGA

                                             *      
        929 ATTTAATTAATGTAAGTATTTCAGTTATTATA-GTATTAC
          1 ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC

                                 *                  
        968 ATTTAATTAATGTAAGTATTTTAGTTATTATATATATTAC
          1 ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC

              
       1008 AT
          1 AT

       1010 AGGAATTAAA


Statistics
Matches: 39,  Mismatches: 2, Indels: 1
        0.93            0.05        0.02

Matches are distributed among these distances:
  39   31  0.79
  40    8  0.21

ACGTcount: A:0.37, C:0.04, G:0.09, T:0.51


Consensus pattern (40 bp):   
ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC

Found at i:1851 original size:19 final size:21

Alignment explanation


    Indices: 1813--1851  Score: 55
    Period size: 19  Copynumber: 2.0  Consensus size: 21

       1803 TTTAGTAACC

                                 
       1813 TAACATCTTTAATAAATTTAG
          1 TAACATCTTTAATAAATTTAG

                         *      
       1834 TAACAT-TTT-ATCAATTTA
          1 TAACATCTTTAATAAATTTA

       1852 ATGAGGAGTA


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  19    8  0.47
  20    3  0.18
  21    6  0.35

ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46


Consensus pattern (21 bp):   
TAACATCTTTAATAAATTTAG
Done.