Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019681.1 Corchorus olitorius cultivar O-4 contig19714, 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: 14680
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33


Found at i:4650 original size:2 final size:2

Alignment explanation


    Indices: 4643--4704  Score: 67
    Period size: 2  Copynumber: 32.5  Consensus size: 2

       4633 AACTCAAAAA

                                     *                             *      
       4643 CT CT CT CT CT CT CT CT CC CT CT C- CT CT C- CT CT CT CC CT CT
          1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT

                *           *                 
       4683 CT CC CT CT C- CC CT CT CT CT CT C
          1 CT CT CT CT CT CT CT CT CT CT CT C

       4705 CCTCCCCCTT


Statistics
Matches: 50,  Mismatches: 7, Indels: 6
        0.79            0.11        0.10

Matches are distributed among these distances:
   1    3  0.06
   2   47  0.94

ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40


Consensus pattern (2 bp):   
CT

Found at i:10646 original size:3 final size:3

Alignment explanation


    Indices: 10638--10689  Score: 104
    Period size: 3  Copynumber: 17.3  Consensus size: 3

      10628 TAGAGGGTTT

                                                                           
      10638 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
          1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA

                 
      10686 ATA A
          1 ATA A

      10690 AACCAGTAAA


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

Matches are distributed among these distances:
   3   49  1.00

ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33


Consensus pattern (3 bp):   
ATA

Done.