Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019382.1 Corchorus olitorius cultivar O-4 contig19415, 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: 13016
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31


Found at i:4595 original size:13 final size:13

Alignment explanation


    Indices: 4573--4602  Score: 51
    Period size: 13  Copynumber: 2.3  Consensus size: 13

       4563 ATCAAGTGAG

                         
       4573 TTTTTCTTTTTCT
          1 TTTTTCTTTTTCT

                 *       
       4586 TTTTTTTTTTTCT
          1 TTTTTCTTTTTCT

                
       4599 TTTT
          1 TTTT

       4603 CAGCAGGCAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  13   16  1.00

ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90


Consensus pattern (13 bp):   
TTTTTCTTTTTCT

Found at i:8237 original size:2 final size:2

Alignment explanation


    Indices: 8230--8264  Score: 70
    Period size: 2  Copynumber: 17.5  Consensus size: 2

       8220 AATATCATTA

                                                                
       8230 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
          1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A

       8265 AGTACTGATG


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   33  1.00

ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00


Consensus pattern (2 bp):   
AC

Found at i:11404 original size:1 final size:1

Alignment explanation


    Indices: 11364--11388  Score: 50
    Period size: 1  Copynumber: 25.0  Consensus size: 1

      11354 AGAATTCAGT

                                     
      11364 AAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAA

      11389 GAAATTAAGC


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   24  1.00

ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00


Consensus pattern (1 bp):   
A

Done.