Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012009.1 Corchorus olitorius cultivar O-4 contig12042, 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: 17840
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32


Found at i:811 original size:22 final size:22

Alignment explanation


    Indices: 777--820  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        767 ATTCACTGCT

                         *        
        777 ATCTTGTTAATTGTTTTCTTTA
          1 ATCTTGTTAATTGCTTTCTTTA

                 *  *             
        799 ATCTTTTTGATTGCTTTCTTTA
          1 ATCTTGTTAATTGCTTTCTTTA

        821 GTTGATTTTG


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  22   19  1.00

ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64


Consensus pattern (22 bp):   
ATCTTGTTAATTGCTTTCTTTA

Found at i:9116 original size:11 final size:10

Alignment explanation


    Indices: 9085--9132  Score: 55
    Period size: 11  Copynumber: 4.8  Consensus size: 10

       9075 GAAGTTTGTG

                       
       9085 ATTGAAGATTA
          1 ATTGAAGA-TA

                      
       9096 ATTGAAGATA
          1 ATTGAAGATA

                       
       9106 ATTTGAAGAT-
          1 A-TTGAAGATA

                     *
       9116 A-TGAAGATC
          1 ATTGAAGATA

                    
       9125 ATTGAAGA
          1 ATTGAAGA

       9133 ATTATTTCAA


Statistics
Matches: 34,  Mismatches: 0, Indels: 7
        0.83            0.00        0.17

Matches are distributed among these distances:
   8    7  0.21
   9    1  0.03
  10   10  0.29
  11   16  0.47

ACGTcount: A:0.46, C:0.02, G:0.21, T:0.31


Consensus pattern (10 bp):   
ATTGAAGATA
Done.