Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017913.1 Corchorus olitorius cultivar O-4 contig17946, 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: 8215
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33


Found at i:674 original size:27 final size:29

Alignment explanation


    Indices: 639--714  Score: 102
    Period size: 27  Copynumber: 2.7  Consensus size: 29

        629 ATGTGAACTT

                                         
        639 AAAATGACCAAAATGCCCCT-GA-ATGTA
          1 AAAATGACCAAAATGCCCCTGGATATGTA

                                    * * *
        666 AAAATGACCAAAATGCCCCTGGATTTTTG
          1 AAAATGACCAAAATGCCCCTGGATATGTA

                                
        695 AAAATGACCCAAAATGCCCC
          1 AAAATGA-CCAAAATGCCCC

        715 ATAGATGACC


Statistics
Matches: 43,  Mismatches: 3, Indels: 3
        0.88            0.06        0.06

Matches are distributed among these distances:
  27   20  0.47
  28    2  0.05
  29    9  0.21
  30   12  0.28

ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20


Consensus pattern (29 bp):   
AAAATGACCAAAATGCCCCTGGATATGTA

Found at i:2735 original size:18 final size:19

Alignment explanation


    Indices: 2709--2748  Score: 55
    Period size: 18  Copynumber: 2.2  Consensus size: 19

       2699 AGGGTTCTTG

                        *      
       2709 ATTTATGCAATTGA-CCTA
          1 ATTTATGCAATTAACCCTA

                *              
       2727 ATTTGTGCAATTAACCCTA
          1 ATTTATGCAATTAACCCTA

               
       2746 ATT
          1 ATT

       2749 GGAGAAAATT


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  18   12  0.63
  19    7  0.37

ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40


Consensus pattern (19 bp):   
ATTTATGCAATTAACCCTA

Done.