Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020991.1 Corchorus olitorius cultivar O-4 contig21024, 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: 14158
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30


Found at i:3046 original size:2 final size:2

Alignment explanation


    Indices: 3039--3063  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

       3029 GCGGCTAAAG

                                                 
       3039 TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA T

       3064 GAAATTCTAA


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

Matches are distributed among these distances:
   2   23  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:5783 original size:31 final size:31

Alignment explanation


    Indices: 5748--5849  Score: 98
    Period size: 31  Copynumber: 3.2  Consensus size: 31

       5738 GGTGTCCGAC

                  *                  *     
       5748 GTGGCATGCCATGTGTGCCAAAAAGCGACAT
          1 GTGGCACGCCATGTGTGCCAAAAAGTGACAT

                       *                   *
       5779 GTGGCACGCCACGTGTAG-CAAAAAGTGACAC
          1 GTGGCACGCCATGTGT-GCCAAAAAGTGACAT

              **            *                 
       5810 GTATCACGCCATGTGTACCAAAAAATAGTGACAT
          1 GTGGCACGCCATGTGTGCC--AAAA-AGTGACAT

                  
       5844 GTGGCA
          1 GTGGCA

       5850 TGTCACGTGC


Statistics
Matches: 55,  Mismatches: 11, Indels: 7
        0.75            0.15        0.10

Matches are distributed among these distances:
  31   39  0.71
  32    1  0.02
  33    4  0.07
  34   11  0.20

ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19


Consensus pattern (31 bp):   
GTGGCACGCCATGTGTGCCAAAAAGTGACAT
Done.