Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016897.1 Corchorus olitorius cultivar O-4 contig16930, 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: 1735
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39


Found at i:330 original size:29 final size:30

Alignment explanation


    Indices: 270--330  Score: 79
    Period size: 29  Copynumber: 2.0  Consensus size: 30

        260 GAAGTTCGTG

                                      **   
        270 TTTGAAGACTCATTGAAGACTTATTTGGAGA
          1 TTTGAAGACT-ATTGAAGACTTATTTCAAGA

                              *           
        301 TTTGAAGACT-TTGAAGATTTATTTCAAGA
          1 TTTGAAGACTATTGAAGACTTATTTCAAGA

             
        330 T
          1 T

        331 GAAGAATTGA


Statistics
Matches: 27,  Mismatches: 3, Indels: 2
        0.84            0.09        0.06

Matches are distributed among these distances:
  29   17  0.63
  31   10  0.37

ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39


Consensus pattern (30 bp):   
TTTGAAGACTATTGAAGACTTATTTCAAGA

Found at i:1468 original size:45 final size:45

Alignment explanation


    Indices: 1404--1531  Score: 238
    Period size: 45  Copynumber: 2.8  Consensus size: 45

       1394 AGCAACAATT

                                                         
       1404 AATATTAGCTTTATTTTGATGAATTACCTAGAGATGGAGGAGTAG
          1 AATATTAGCTTTATTTTGATGAATTACCTAGAGATGGAGGAGTAG

                                                        *
       1449 AATATTAGCTTTATTTTGATGAATTACCTAGAGATGGAGGAGTAT
          1 AATATTAGCTTTATTTTGATGAATTACCTAGAGATGGAGGAGTAG

                      *                           
       1494 AATATTAGCTCTATTTTGATGAATTACCTAGAGATGGA
          1 AATATTAGCTTTATTTTGATGAATTACCTAGAGATGGA

       1532 ATAGATTTTA


Statistics
Matches: 81,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  45   81  1.00

ACGTcount: A:0.34, C:0.08, G:0.22, T:0.37


Consensus pattern (45 bp):   
AATATTAGCTTTATTTTGATGAATTACCTAGAGATGGAGGAGTAG
Done.