Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024712.1 Corchorus olitorius cultivar O-4 contig24745, 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: 14546
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30


Found at i:1658 original size:27 final size:28

Alignment explanation


    Indices: 1628--1692  Score: 82
    Period size: 27  Copynumber: 2.4  Consensus size: 28

       1618 ACAAAAATTT

                                         
       1628 TTTTTTTCTTGA-CGCAAAACAC-AAAAC
          1 TTTTTTTCTTGATCGCAAAA-ACGAAAAC

                      *                 
       1655 TTTTTTT-TTTATCGCAAAAACGAAAAC
          1 TTTTTTTCTTGATCGCAAAAACGAAAAC

                       
       1682 TCTTTTTTCTT
          1 T-TTTTTTCTT

       1693 TTTCAAAGAC


Statistics
Matches: 33,  Mismatches: 1, Indels: 6
        0.82            0.03        0.15

Matches are distributed among these distances:
  26    5  0.15
  27   20  0.61
  28    6  0.18
  29    2  0.06

ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45


Consensus pattern (28 bp):   
TTTTTTTCTTGATCGCAAAAACGAAAAC

Found at i:2112 original size:15 final size:16

Alignment explanation


    Indices: 2092--2131  Score: 64
    Period size: 15  Copynumber: 2.6  Consensus size: 16

       2082 AGAGGTTGAA

                            
       2092 AGAAAACAATTAAAC-
          1 AGAAAACAATTAAACT

                        *   
       2107 AGAAAACAATTATACT
          1 AGAAAACAATTAAACT

                     
       2123 AGAAAACAA
          1 AGAAAACAA

       2132 AGCAAAGTAA


Statistics
Matches: 23,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  15   14  0.61
  16    9  0.39

ACGTcount: A:0.65, C:0.12, G:0.07, T:0.15


Consensus pattern (16 bp):   
AGAAAACAATTAAACT

Done.