Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023449.1 Corchorus olitorius cultivar O-4 contig23482, 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: 19150
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34


Found at i:7945 original size:15 final size:16

Alignment explanation


    Indices: 7919--7954  Score: 65
    Period size: 15  Copynumber: 2.3  Consensus size: 16

       7909 TTTGTTTTGT

                            
       7919 TTTCTAGTTTAATTGC
          1 TTTCTAGTTTAATTGC

                            
       7935 TTTCT-GTTTAATTGC
          1 TTTCTAGTTTAATTGC

                 
       7950 TTTCT
          1 TTTCT

       7955 TTCAACCTCT


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  15   15  0.75
  16    5  0.25

ACGTcount: A:0.14, C:0.14, G:0.11, T:0.61


Consensus pattern (16 bp):   
TTTCTAGTTTAATTGC

Found at i:9690 original size:2 final size:2

Alignment explanation


    Indices: 9683--9714  Score: 55
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       9673 ACGTCATAAA

                        *                                  
       9683 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       9715 TACAATTTCT


Statistics
Matches: 28,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   2   28  1.00

ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:12059 original size:12 final size:11

Alignment explanation


    Indices: 12017--12056  Score: 55
    Period size: 12  Copynumber: 3.6  Consensus size: 11

      12007 ATGTATATAT

                       
      12017 AATTAAATT-A
          1 AATTAAATTAA

                       
      12027 AATTAAATTAA
          1 AATTAAATTAA

                *       
      12038 AATCCAAATTAA
          1 AAT-TAAATTAA

                   
      12050 AATTAAA
          1 AATTAAA

      12057 ATTCTGTTAT


Statistics
Matches: 26,  Mismatches: 2, Indels: 3
        0.84            0.06        0.10

Matches are distributed among these distances:
  10    9  0.35
  11    7  0.27
  12   10  0.38

ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33


Consensus pattern (11 bp):   
AATTAAATTAA
Done.