Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014545.1 Corchorus olitorius cultivar O-4 contig14578, 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: 5461
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32


Found at i:2740 original size:19 final size:20

Alignment explanation


    Indices: 2716--2755  Score: 57
    Period size: 19  Copynumber: 2.0  Consensus size: 20

       2706 GGACAAAATT

                                 
       2716 TTTTTTA-T-GACGCAGAAAC
          1 TTTTTTATTCGACGCA-AAAC

                                
       2735 TTTTTTATTCGACGCAAAAC
          1 TTTTTTATTCGACGCAAAAC

             
       2755 T
          1 T

       2756 GAAAACAGAT


Statistics
Matches: 19,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  19    7  0.37
  20    6  0.32
  21    6  0.32

ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40


Consensus pattern (20 bp):   
TTTTTTATTCGACGCAAAAC

Found at i:2851 original size:40 final size:40

Alignment explanation


    Indices: 2807--2884  Score: 113
    Period size: 41  Copynumber: 1.9  Consensus size: 40

       2797 TTAAAAACGC

                      *                              
       2807 AAAAT-AAATTATTTTTTTCAGGTCAAAAACGCAGAAAAGA
          1 AAAATAAAATGATTTTTTT-AGGTCAAAAACGCAGAAAAGA

                                    *             
       2847 AAAATAAAAATGATTTTTTTAGGTTAAAAACGCAGAAA
          1 AAAAT-AAAATGATTTTTTTAGGTCAAAAACGCAGAAA

       2885 CTTAGAGAAA


Statistics
Matches: 34,  Mismatches: 2, Indels: 3
        0.87            0.05        0.08

Matches are distributed among these distances:
  40    5  0.15
  41   17  0.50
  42   12  0.35

ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28


Consensus pattern (40 bp):   
AAAATAAAATGATTTTTTTAGGTCAAAAACGCAGAAAAGA
Done.