Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020667.1 Corchorus olitorius cultivar O-4 contig20700, 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: 35589
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32


Found at i:11672 original size:20 final size:21

Alignment explanation


    Indices: 11649--11689  Score: 57
    Period size: 22  Copynumber: 2.0  Consensus size: 21

      11639 AGTGAAGTAA

                     *           
      11649 ATTTG-TGGTCTTCATAATAT
          1 ATTTGATGGGCTTCATAATAT

                                 
      11669 ATTTGATTGGGCTTCATAATA
          1 ATTTGA-TGGGCTTCATAATA

      11690 AATGATAAGT


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  20    5  0.28
  22   13  0.72

ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46


Consensus pattern (21 bp):   
ATTTGATGGGCTTCATAATAT

Found at i:16556 original size:13 final size:13

Alignment explanation


    Indices: 16538--16564  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

      16528 CCAATTGATT

                         
      16538 CATTTAAAGTCTC
          1 CATTTAAAGTCTC

                         
      16551 CATTTAAAGTCTC
          1 CATTTAAAGTCTC

             
      16564 C
          1 C

      16565 GGATGAACTG


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   14  1.00

ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37


Consensus pattern (13 bp):   
CATTTAAAGTCTC

Found at i:33523 original size:195 final size:195

Alignment explanation


    Indices: 33191--33585  Score: 745
    Period size: 195  Copynumber: 2.0  Consensus size: 195

      33181 GCTTGTTTTA

                                                                             
      33191 CCTAACTTTAACAATACTTTTGAGATTGAATGTGATGCTTCAGGTGTAGGTATTGGCGCAGTGCT
          1 CCTAACTTTAACAATACTTTTGAGATTGAATGTGATGCTTCAGGTGTAGGTATTGGCGCAGTGCT

                        *          *                                         
      33256 CATGCAAGGAGGGAAACCCGTGGCATACTTTAGTGAGAAGTTGAATGGGGCTGCGTTGAACTATC
         66 CATGCAAGGAGGAAAACCCGTGGAATACTTTAGTGAGAAGTTGAATGGGGCTGCGTTGAACTATC

                                                                             
      33321 CTACATATGATAAGGAGTTGTATGCTCTTGTTAGAGCATTACAAACTTGGCAGCATTATTTGTGG
        131 CTACATATGATAAGGAGTTGTATGCTCTTGTTAGAGCATTACAAACTTGGCAGCATTATTTGTGG

                                                    *               *        
      33386 CCTAACTTTAACAATACTTTTGAGATTGAATGTGATGCTTTAGGTGTAGGTATTGGTGCAGTGCT
          1 CCTAACTTTAACAATACTTTTGAGATTGAATGTGATGCTTCAGGTGTAGGTATTGGCGCAGTGCT

                                                *                            
      33451 CATGCAAGGAGGAAAACCCGTGGAATACTTTAGTGATAAGTTGAATGGGGCTGCGTTGAACTATC
         66 CATGCAAGGAGGAAAACCCGTGGAATACTTTAGTGAGAAGTTGAATGGGGCTGCGTTGAACTATC

                                                                             
      33516 CTACATATGATAAGGAGTTGTATGCTCTTGTTAGAGCATTACAAACTTGGCAGCATTATTTGTGG
        131 CTACATATGATAAGGAGTTGTATGCTCTTGTTAGAGCATTACAAACTTGGCAGCATTATTTGTGG

                 
      33581 CCTAA
          1 CCTAA

      33586 GGAGTTTGTG


Statistics
Matches: 195,  Mismatches: 5, Indels: 0
        0.98            0.03        0.00

Matches are distributed among these distances:
 195  195  1.00

ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32


Consensus pattern (195 bp):   
CCTAACTTTAACAATACTTTTGAGATTGAATGTGATGCTTCAGGTGTAGGTATTGGCGCAGTGCT
CATGCAAGGAGGAAAACCCGTGGAATACTTTAGTGAGAAGTTGAATGGGGCTGCGTTGAACTATC
CTACATATGATAAGGAGTTGTATGCTCTTGTTAGAGCATTACAAACTTGGCAGCATTATTTGTGG
Done.