Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023818.1 Corchorus olitorius cultivar O-4 contig23851, 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: 9863
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33


Found at i:7631 original size:38 final size:39

Alignment explanation


    Indices: 7578--7692  Score: 180
    Period size: 38  Copynumber: 2.9  Consensus size: 39

       7568 ACTTAATCAA

                                             *       
       7578 TTTTATTAATTTCCAAAATCTTCTTTTGG-ATTTCTTAAAC
          1 TTTTATT--TTTCCAAAATCTTCTTTTGGAATTACTTAAAC

                                             *     
       7618 TTTTATTTTTCCAAAATCTTCTTTTGGAATTACCTAAAC
          1 TTTTATTTTTCCAAAATCTTCTTTTGGAATTACTTAAAC

                                                 
       7657 TTTTA-TTTTCCAAAATCTTCTTTTGGAATTACTTAA
          1 TTTTATTTTTCCAAAATCTTCTTTTGGAATTACTTAA

       7693 TTAAAAACAT


Statistics
Matches: 71,  Mismatches: 3, Indels: 4
        0.91            0.04        0.05

Matches are distributed among these distances:
  38   50  0.70
  39   14  0.20
  40    7  0.10

ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51


Consensus pattern (39 bp):   
TTTTATTTTTCCAAAATCTTCTTTTGGAATTACTTAAAC

Found at i:8954 original size:50 final size:51

Alignment explanation


    Indices: 8895--9004  Score: 152
    Period size: 50  Copynumber: 2.2  Consensus size: 51

       8885 ATCTTTGCTC

                                *       *                      
       8895 ACAAATTACTTAAAA-ATTCTACCTTTCCCTCAAAGATTACACTTTTATTT
          1 ACAAATTACTTAAAATATTCAACCTTTCACTCAAAGATTACACTTTTATTT

                            *     *    *              *        
       8945 ACAAATTAC-TAAAATGTTCAATCTTTTACTCAAAGATTACATTTTTATTT
          1 ACAAATTACTTAAAATATTCAACCTTTCACTCAAAGATTACACTTTTATTT

                      
       8995 ACAAATTACT
          1 ACAAATTACT

       9005 CACCAAAGCT


Statistics
Matches: 52,  Mismatches: 6, Indels: 3
        0.85            0.10        0.05

Matches are distributed among these distances:
  49    5  0.10
  50   47  0.90

ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41


Consensus pattern (51 bp):   
ACAAATTACTTAAAATATTCAACCTTTCACTCAAAGATTACACTTTTATTT
Done.