Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021375.1 Corchorus olitorius cultivar O-4 contig21408, 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: 16092
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36


Found at i:4729 original size:10 final size:10

Alignment explanation


    Indices: 4714--4740  Score: 54
    Period size: 10  Copynumber: 2.7  Consensus size: 10

       4704 GTTTAGGGTT

                      
       4714 TTTTTTTATA
          1 TTTTTTTATA

                      
       4724 TTTTTTTATA
          1 TTTTTTTATA

                   
       4734 TTTTTTT
          1 TTTTTTT

       4741 TTGTGAGCAA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   17  1.00

ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85


Consensus pattern (10 bp):   
TTTTTTTATA

Found at i:10120 original size:34 final size:35

Alignment explanation


    Indices: 10058--10132  Score: 134
    Period size: 34  Copynumber: 2.2  Consensus size: 35

      10048 CTTCTGTAAT

                              *                
      10058 TCTTTTGATTTCATAGTTTATTAGATTAATTTTAC
          1 TCTTTTGATTTCATAGTTCATTAGATTAATTTTAC

                                               
      10093 TCTTTTGATTTCAT-GTTCATTAGATTAATTTTAC
          1 TCTTTTGATTTCATAGTTCATTAGATTAATTTTAC

                  
      10127 TCTTTT
          1 TCTTTT

      10133 ATGTACTATT


Statistics
Matches: 39,  Mismatches: 1, Indels: 1
        0.95            0.02        0.02

Matches are distributed among these distances:
  34   25  0.64
  35   14  0.36

ACGTcount: A:0.23, C:0.11, G:0.08, T:0.59


Consensus pattern (35 bp):   
TCTTTTGATTTCATAGTTCATTAGATTAATTTTAC

Found at i:14538 original size:25 final size:25

Alignment explanation


    Indices: 14510--14557  Score: 96
    Period size: 25  Copynumber: 1.9  Consensus size: 25

      14500 TAGCATTTGA

                                     
      14510 ACAAATTAGTATTGATTAGTAACCG
          1 ACAAATTAGTATTGATTAGTAACCG

                                   
      14535 ACAAATTAGTATTGATTAGTAAC
          1 ACAAATTAGTATTGATTAGTAAC

      14558 TGGGCACATG


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  25   23  1.00

ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33


Consensus pattern (25 bp):   
ACAAATTAGTATTGATTAGTAACCG
Done.