Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015178.1 Corchorus olitorius cultivar O-4 contig15211, 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: 3535
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30


Found at i:1569 original size:52 final size:51

Alignment explanation


    Indices: 1473--1570  Score: 126
    Period size: 51  Copynumber: 1.9  Consensus size: 51

       1463 AAAATTTTAA

                           *                    ** *           
       1473 ATTTTTTTCCTGAAATTTTAATATTTTCTGGGAAAATTTTTTTTGGGTTTT
          1 ATTTTTTTCCTGAAAATTTAATATTTTCTGGGAAAAAATATTTTGGGTTTT

                                        *                   
       1524 ATTTTTTTCCTGAAAATTTAA-ACTTTTTTGGGGAAAAAATATTTTGG
          1 ATTTTTTTCCTGAAAATTTAATA-TTTTCT-GGGAAAAAATATTTTGG

       1571 CCACGTGGCT


Statistics
Matches: 40,  Mismatches: 5, Indels: 3
        0.83            0.10        0.06

Matches are distributed among these distances:
  50    1  0.03
  51   25  0.62
  52   14  0.35

ACGTcount: A:0.27, C:0.06, G:0.14, T:0.53


Consensus pattern (51 bp):   
ATTTTTTTCCTGAAAATTTAATATTTTCTGGGAAAAAATATTTTGGGTTTT

Found at i:1649 original size:13 final size:13

Alignment explanation


    Indices: 1631--1655  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

       1621 TTTTTGAGCC

                         
       1631 ACGTGGACAGATG
          1 ACGTGGACAGATG

                        
       1644 ACGTGGACAGAT
          1 ACGTGGACAGAT

       1656 TTGACGGCAC


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.32, C:0.16, G:0.36, T:0.16


Consensus pattern (13 bp):   
ACGTGGACAGATG
Done.