Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012073.1 Corchorus olitorius cultivar O-4 contig12106, 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: 13646
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30


Found at i:5866 original size:48 final size:48

Alignment explanation


    Indices: 5795--5891  Score: 194
    Period size: 48  Copynumber: 2.0  Consensus size: 48

       5785 TCTAGTTTAA

                                                            
       5795 TAGGGAGTTTACATGCATATTGATCATAATCTTAATTTATGTCATAAT
          1 TAGGGAGTTTACATGCATATTGATCATAATCTTAATTTATGTCATAAT

                                                            
       5843 TAGGGAGTTTACATGCATATTGATCATAATCTTAATTTATGTCATAAT
          1 TAGGGAGTTTACATGCATATTGATCATAATCTTAATTTATGTCATAAT

             
       5891 T
          1 T

       5892 TTTTCGAAAA


Statistics
Matches: 49,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  48   49  1.00

ACGTcount: A:0.33, C:0.10, G:0.14, T:0.42


Consensus pattern (48 bp):   
TAGGGAGTTTACATGCATATTGATCATAATCTTAATTTATGTCATAAT

Found at i:7155 original size:10 final size:11

Alignment explanation


    Indices: 7128--7156  Score: 51
    Period size: 11  Copynumber: 2.7  Consensus size: 11

       7118 GAAGTTCGTG

                       
       7128 TTTGAAGACTA
          1 TTTGAAGACTA

                       
       7139 TTTGAAGACTA
          1 TTTGAAGACTA

                    
       7150 -TTGAAGA
          1 TTTGAAGA

       7157 ATTATTTCAA


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

Matches are distributed among these distances:
  10    7  0.39
  11   11  0.61

ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34


Consensus pattern (11 bp):   
TTTGAAGACTA

Found at i:10082 original size:2 final size:2

Alignment explanation


    Indices: 10075--10100  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

      10065 TGACAAAGTA

                                                  
      10075 AT AT 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

      10101 GAATAAAACG


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

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


Consensus pattern (2 bp):   
AT

Done.