Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024658.1 Corchorus olitorius cultivar O-4 contig24691, 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: 7940
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29


Found at i:6821 original size:15 final size:15

Alignment explanation


    Indices: 6801--6835  Score: 61
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       6791 TAGGATAGAA

                           
       6801 AATTGTTTGTTTTTG
          1 AATTGTTTGTTTTTG

                           
       6816 AATTGTTTGTTTTTG
          1 AATTGTTTGTTTTTG

            *    
       6831 GATTG
          1 AATTG

       6836 ATTATTCTAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  15   19  1.00

ACGTcount: A:0.14, C:0.00, G:0.23, T:0.63


Consensus pattern (15 bp):   
AATTGTTTGTTTTTG

Found at i:6904 original size:88 final size:88

Alignment explanation


    Indices: 6755--6930  Score: 334
    Period size: 88  Copynumber: 2.0  Consensus size: 88

       6745 ATTGCTTGAA

                                                                             
       6755 TAATTGAGTCATATGCTATTTATTTGTATGAGAACTTAGGATAGAAAATTGTTTGTTTTTGAATT
          1 TAATTGAGTCATATGCTATTTATTTGTATGAGAACTTAGGATAGAAAATTGTTTGTTTTTGAATT

                *     *            
       6820 GTTTGTTTTTGGATTGATTATTC
         66 GTTTCTTTTTAGATTGATTATTC

                                                                             
       6843 TAATTGAGTCATATGCTATTTATTTGTATGAGAACTTAGGATAGAAAATTGTTTGTTTTTGAATT
          1 TAATTGAGTCATATGCTATTTATTTGTATGAGAACTTAGGATAGAAAATTGTTTGTTTTTGAATT

                                   
       6908 GTTTCTTTTTAGATTGATTATTC
         66 GTTTCTTTTTAGATTGATTATTC

       6931 CCCAATTTTT


Statistics
Matches: 86,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  88   86  1.00

ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50


Consensus pattern (88 bp):   
TAATTGAGTCATATGCTATTTATTTGTATGAGAACTTAGGATAGAAAATTGTTTGTTTTTGAATT
GTTTCTTTTTAGATTGATTATTC

Found at i:7035 original size:13 final size:13

Alignment explanation


    Indices: 7017--7042  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       7007 CATACATAAA

                         
       7017 TTGATTGATTGAT
          1 TTGATTGATTGAT

                         
       7030 TTGATTGATTGAT
          1 TTGATTGATTGAT

       7043 GAATGCTTAG


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54


Consensus pattern (13 bp):   
TTGATTGATTGAT
Done.