Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010521.1 Corchorus olitorius cultivar O-4 contig10553, 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: 2121
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34


Found at i:560 original size:15 final size:16

Alignment explanation


    Indices: 534--567  Score: 61
    Period size: 15  Copynumber: 2.2  Consensus size: 16

        524 TTTGCTTTGT

                            
        534 TTTCTAGTTTAATTGC
          1 TTTCTAGTTTAATTGC

                            
        550 TTTCT-GTTTAATTGC
          1 TTTCTAGTTTAATTGC

               
        565 TTT
          1 TTT

        568 TTGTATTCTG


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  15   13  0.72
  16    5  0.28

ACGTcount: A:0.15, C:0.12, G:0.12, T:0.62


Consensus pattern (16 bp):   
TTTCTAGTTTAATTGC

Found at i:1053 original size:30 final size:30

Alignment explanation


    Indices: 1019--1085  Score: 89
    Period size: 30  Copynumber: 2.2  Consensus size: 30

       1009 TTTGCATCGG

                      **  *         **    
       1019 AAAAAAAAAAGTTTTTGCGTCATATTTAAA
          1 AAAAAAAAAAAATTCTGCGTCATAAATAAA

                                          
       1049 AAAAAAAAAAAATTCTGCGTCATAAATAAA
          1 AAAAAAAAAAAATTCTGCGTCATAAATAAA

                   
       1079 AAAAAAA
          1 AAAAAAA

       1086 TTTCTTGTTC


Statistics
Matches: 32,  Mismatches: 5, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  30   32  1.00

ACGTcount: A:0.61, C:0.07, G:0.07, T:0.24


Consensus pattern (30 bp):   
AAAAAAAAAAAATTCTGCGTCATAAATAAA
Done.