Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010036.1 Corchorus olitorius cultivar O-4 contig10068, 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: 5978
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34


Found at i:4497 original size:14 final size:15

Alignment explanation


    Indices: 4478--4507  Score: 53
    Period size: 14  Copynumber: 2.1  Consensus size: 15

       4468 TGGTCAGCCG

                           
       4478 CGGCTTGAGCC-AGC
          1 CGGCTTGAGCCGAGC

                           
       4492 CGGCTTGAGCCGAGC
          1 CGGCTTGAGCCGAGC

             
       4507 C
          1 C

       4508 AAATGGCTCT


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

Matches are distributed among these distances:
  14   11  0.73
  15    4  0.27

ACGTcount: A:0.13, C:0.37, G:0.37, T:0.13


Consensus pattern (15 bp):   
CGGCTTGAGCCGAGC

Found at i:5838 original size:13 final size:13

Alignment explanation


    Indices: 5808--5860  Score: 60
    Period size: 12  Copynumber: 4.4  Consensus size: 13

       5798 CCCGTTGAGG

                         
       5808 AAATG-TTT-TAT
          1 AAATGCTTTATAT

              *          
       5819 AACTGCTTTATAT
          1 AAATGCTTTATAT

                         
       5832 AAATGCTTTATA-
          1 AAATGCTTTATAT

                 *       
       5844 AAATGTTTTA-AT
          1 AAATGCTTTATAT

                 
       5856 AAATG
          1 AAATG

       5861 TTTTGGGTGC


Statistics
Matches: 36,  Mismatches: 3, Indels: 5
        0.82            0.07        0.11

Matches are distributed among these distances:
  11    5  0.14
  12   17  0.47
  13   14  0.39

ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45


Consensus pattern (13 bp):   
AAATGCTTTATAT

Done.