Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022587.1 Corchorus olitorius cultivar O-4 contig22620, 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: 5426
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:2017 original size:21 final size:21

Alignment explanation


    Indices: 1963--2011  Score: 80
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       1953 GACTTGGAAT

                *                
       1963 GGTGATGGCACGGGCATAACC
          1 GGTGGTGGCACGGGCATAACC

                           *     
       1984 GGTGGTGGCACGGGCTTAACC
          1 GGTGGTGGCACGGGCATAACC

                   
       2005 GGTGGTG
          1 GGTGGTG

       2012 TTACGGTGAA


Statistics
Matches: 26,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  21   26  1.00

ACGTcount: A:0.16, C:0.20, G:0.45, T:0.18


Consensus pattern (21 bp):   
GGTGGTGGCACGGGCATAACC

Found at i:4623 original size:16 final size:15

Alignment explanation


    Indices: 4585--4626  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       4575 ACAGAGATTG

                   *       
       4585 ACAGAAAGCAATTAA
          1 ACAGAAAACAATTAA

                           
       4600 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
       4615 ACTAGAAAACAA
          1 AC-AGAAAACAA

       4627 AGCAGAGTAA


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:0.64, C:0.14, G:0.10, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA

Found at i:5401 original size:11 final size:11

Alignment explanation


    Indices: 5385--5410  Score: 52
    Period size: 11  Copynumber: 2.4  Consensus size: 11

       5375 CCTTTGCCTA

                       
       5385 AAAACTAGAAG
          1 AAAACTAGAAG

                       
       5396 AAAACTAGAAG
          1 AAAACTAGAAG

                
       5407 AAAA
          1 AAAA

       5411 GAAATTATCT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   15  1.00

ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08


Consensus pattern (11 bp):   
AAAACTAGAAG
Done.