Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012998.1 Corchorus olitorius cultivar O-4 contig13031, 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: 8099
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26


Found at i:603 original size:76 final size:76

Alignment explanation


    Indices: 310--601  Score: 548
    Period size: 76  Copynumber: 3.8  Consensus size: 76

        300 CTATCCACCA

                                                                             
        310 GTGAGACAAAGCGTCCATGCAGACGCTGCTCACCCAACGGCTGAGTGCCTAGACTGGCATCCCCG
          1 GTGAGACAAAGCGTCCATGCAGACGCTGCTCACCCAACGGCTGAGTGCCTAGACTGGCATCCCCG

                       
        375 TTCGTCTATTT
         66 TTCGTCTATTT

                                                   *                         
        386 GTGAGACAAAGCGTCCATGCAGACGCTGCTCACCCAACGACTGAGTGCCTAGACTGGCATCCCCG
          1 GTGAGACAAAGCGTCCATGCAGACGCTGCTCACCCAACGGCTGAGTGCCTAGACTGGCATCCCCG

                      *
        451 TTCGTCTATTC
         66 TTCGTCTATTT

                                                    *                        
        462 GTGAGACAAAGCGTCCATGCAGACGCTGCTCACCCAACGGTTGAGTGCCTAGACTGGCATCCCCG
          1 GTGAGACAAAGCGTCCATGCAGACGCTGCTCACCCAACGGCTGAGTGCCTAGACTGGCATCCCCG

                       
        527 TTCGTCTATTT
         66 TTCGTCTATTT

                                                                            
        538 GTGAGACAAAGCGTCCATGCAGACGCTGCTCACCCAACGGCTGAGTGCCTAGACTGGCACTCCC
          1 GTGAGACAAAGCGTCCATGCAGACGCTGCTCACCCAACGGCTGAGTGCCTAGACTGGCA-TCCC

        602 GTCCGTCGTA


Statistics
Matches: 209,  Mismatches: 6, Indels: 1
        0.97            0.03        0.00

Matches are distributed among these distances:
  76  205  0.98
  77    4  0.02

ACGTcount: A:0.22, C:0.32, G:0.25, T:0.21


Consensus pattern (76 bp):   
GTGAGACAAAGCGTCCATGCAGACGCTGCTCACCCAACGGCTGAGTGCCTAGACTGGCATCCCCG
TTCGTCTATTT

Found at i:4324 original size:15 final size:15

Alignment explanation


    Indices: 4305--4341  Score: 65
    Period size: 15  Copynumber: 2.5  Consensus size: 15

       4295 TCTGAAATTC

                           
       4305 AAAATTTTGAATTTT
          1 AAAATTTTGAATTTT

            *              
       4320 CAAATTTTGAATTTT
          1 AAAATTTTGAATTTT

                   
       4335 AAAATTT
          1 AAAATTT

       4342 CGCGCTAAAA


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  15   20  1.00

ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51


Consensus pattern (15 bp):   
AAAATTTTGAATTTT
Done.