Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018321.1 Corchorus olitorius cultivar O-4 contig18354, 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: 8452
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33


Found at i:5087 original size:25 final size:25

Alignment explanation


    Indices: 5069--5137  Score: 138
    Period size: 25  Copynumber: 2.8  Consensus size: 25

       5059 AAACGCGTCC

                                     
       5069 GTGCTTGCGTTTGGAAAACGAACCT
          1 GTGCTTGCGTTTGGAAAACGAACCT

                                     
       5094 GTGCTTGCGTTTGGAAAACGAACCT
          1 GTGCTTGCGTTTGGAAAACGAACCT

                               
       5119 GTGCTTGCGTTTGGAAAAC
          1 GTGCTTGCGTTTGGAAAAC

       5138 ACATAGGTTG


Statistics
Matches: 44,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  25   44  1.00

ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29


Consensus pattern (25 bp):   
GTGCTTGCGTTTGGAAAACGAACCT

Found at i:5659 original size:14 final size:14

Alignment explanation


    Indices: 5642--5671  Score: 51
    Period size: 14  Copynumber: 2.1  Consensus size: 14

       5632 ATTGAAATTA

                          
       5642 TTCAATATTACTTC
          1 TTCAATATTACTTC

                      *   
       5656 TTCAATATTATTTC
          1 TTCAATATTACTTC

              
       5670 TT
          1 TT

       5672 TCACTTGTGG


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.27, C:0.17, G:0.00, T:0.57


Consensus pattern (14 bp):   
TTCAATATTACTTC

Found at i:7640 original size:27 final size:27

Alignment explanation


    Indices: 7609--7672  Score: 128
    Period size: 27  Copynumber: 2.4  Consensus size: 27

       7599 AGCGGCCATT

                                       
       7609 CACTTGGGGTTGCGGATGAAGCGCAAC
          1 CACTTGGGGTTGCGGATGAAGCGCAAC

                                       
       7636 CACTTGGGGTTGCGGATGAAGCGCAAC
          1 CACTTGGGGTTGCGGATGAAGCGCAAC

                      
       7663 CACTTGGGGT
          1 CACTTGGGGT

       7673 GGCGCCACAT


Statistics
Matches: 37,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  27   37  1.00

ACGTcount: A:0.20, C:0.22, G:0.38, T:0.20


Consensus pattern (27 bp):   
CACTTGGGGTTGCGGATGAAGCGCAAC
Done.