Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011849.1 Corchorus olitorius cultivar O-4 contig11882, 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: 6102
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32


Found at i:3731 original size:11 final size:11

Alignment explanation


    Indices: 3715--3762  Score: 50
    Period size: 11  Copynumber: 4.7  Consensus size: 11

       3705 CGAAGTCGTG

                       
       3715 TTTGAAGACCA
          1 TTTGAAGACCA

                    ** 
       3726 TTTGAAGATAA
          1 TTTGAAGACCA

                       
       3737 TTTGAAGA-C-
          1 TTTGAAGACCA

                       
       3746 -TTGAAGACCA
          1 TTTGAAGACCA

                    
       3756 -TTGAAGA
          1 TTTGAAGA

       3763 TTTATTTCAA


Statistics
Matches: 32,  Mismatches: 3, Indels: 5
        0.80            0.08        0.12

Matches are distributed among these distances:
   8    7  0.22
   9    1  0.03
  10    7  0.22
  11   17  0.53

ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29


Consensus pattern (11 bp):   
TTTGAAGACCA

Found at i:5152 original size:15 final size:15

Alignment explanation


    Indices: 5119--5160  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       5109 TTACTCTGCT

                          * 
       5119 TTGTTTTCTAGTTTCA
          1 TTGTTTTCT-GTTTAA

                           
       5135 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

                       
       5150 TTGTTTTCTGT
          1 TTGTTTTCTGT

       5161 CAACCTCTGT


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.10, C:0.10, G:0.14, T:0.67


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA
Done.