Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014825.1 Corchorus olitorius cultivar O-4 contig14858, 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: 5394
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35


Found at i:4551 original size:21 final size:21

Alignment explanation


    Indices: 4527--4566  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       4517 TGATGAGGAG

                   **            
       4527 GAAGATTTTGATCTCTTTGGA
          1 GAAGATTCCGATCTCTTTGGA

                               
       4548 GAAGATTCCGATCTCTTTG
          1 GAAGATTCCGATCTCTTTG

       4567 TTTGTGAAGG


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40


Consensus pattern (21 bp):   
GAAGATTCCGATCTCTTTGGA

Found at i:5296 original size:31 final size:31

Alignment explanation


    Indices: 5261--5372  Score: 129
    Period size: 31  Copynumber: 3.6  Consensus size: 31

       5251 TGAATTACCA

                                          *
       5261 ATTGACCCCACTAAAATTGAAGTTTTATCAT
          1 ATTGACCCCACTAAAATTGAAGTTTTATCAC

                                 *         
       5292 ATTGACCCCACTAAAATTGAAATTTTATCAC
          1 ATTGACCCCACTAAAATTGAAGTTTTATCAC

                    *         **   *         
       5323 ATTGATCCTC-CTAAAATAAAAGATTTAT-AGC
          1 ATTGA-CCCCACTAAAATTGAAGTTTTATCA-C

                      *        
       5354 ATTGACCCCATTAAAATTG
          1 ATTGACCCCACTAAAATTG

       5373 TTGGATATTT


Statistics
Matches: 67,  Mismatches: 11, Indels: 6
        0.80            0.13        0.07

Matches are distributed among these distances:
  30    4  0.06
  31   60  0.90
  32    3  0.04

ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33


Consensus pattern (31 bp):   
ATTGACCCCACTAAAATTGAAGTTTTATCAC
Done.