Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010561.1 Corchorus olitorius cultivar O-4 contig10593, 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, 725

Length: 1209
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31


Found at i:90 original size:59 final size:59

Alignment explanation


    Indices: 1--364  Score: 642
    Period size: 59  Copynumber: 6.2  Consensus size: 59

                              *            *                  *        
          1 GATTTGAAAACTCTCTAATAGAGACCTCGAATAGGATTTTAAAAACAAGACAAGATTTT
          1 GATTTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAAACAAGATAAGATTTT

              *       *                                                
         60 GAATTGAAAATTCTCTAACAGAGACCTCGAACAGGATTTTAAAAACAAGATAAGATTTT
          1 GATTTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAAACAAGATAAGATTTT

                                                                       
        119 GATTTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAAACAAGATAAGATTTT
          1 GATTTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAAACAAGATAAGATTTT

                                                      *                
        178 GATTTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAGAACAAGATAAGATTTT
          1 GATTTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAAACAAGATAAGATTTT

              *                                                        
        237 GAATTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAAACAAGATAAGATTTT
          1 GATTTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAAACAAGATAAGATTTT

                                                          *            
        296 GATTTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTT-AAAACGAGATAAGATTTT
          1 GATTTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAAACAAGATAAGATTTT

                        
        354 GATTT-AAAACT
          1 GATTTGAAAACT

        365 GAAACTCAAA


Statistics
Matches: 293,  Mismatches: 12, Indels: 2
        0.95            0.04        0.01

Matches are distributed among these distances:
  57    6  0.02
  58   22  0.08
  59  265  0.90

ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27


Consensus pattern (59 bp):   
GATTTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAAACAAGATAAGATTTT

Found at i:823 original size:2 final size:2

Alignment explanation


    Indices: 816--842  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

        806 TTGACAGAAT

                                                    
        816 AC AC AC AC AC AC AC AC AC AC AC AC AC A
          1 AC AC AC AC AC AC AC AC AC AC AC AC AC A

        843 TATATATATA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00


Consensus pattern (2 bp):   
AC

Done.