Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014199.1 Corchorus olitorius cultivar O-4 contig14232, 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: 2978
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37


Found at i:283 original size:19 final size:18

Alignment explanation


    Indices: 259--294  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

        249 TGAAGACTTA

                               
        259 TTGAAGACAATTTGAAGAT
          1 TTGAAGACAA-TTGAAGAT

                    *        
        278 TTGAAGACCATTGAAGA
          1 TTGAAGACAATTGAAGA

        295 ATAATTTCAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28


Consensus pattern (18 bp):   
TTGAAGACAATTGAAGAT

Found at i:301 original size:30 final size:30

Alignment explanation


    Indices: 247--306  Score: 77
    Period size: 30  Copynumber: 2.0  Consensus size: 30

        237 GAAGTTCGTG

                      *              *    
        247 TTTGAAGACTTATTGAAGACAATTTGAAGA
          1 TTTGAAGACTCATTGAAGACAATTTCAAGA

                                *          
        277 TTTGAAGAC-CATTGAAGAATAATTTCAAGA
          1 TTTGAAGACTCATTGAAG-ACAATTTCAAGA

        307 GCAAGAATTG


Statistics
Matches: 26,  Mismatches: 3, Indels: 2
        0.84            0.10        0.06

Matches are distributed among these distances:
  29    7  0.27
  30   19  0.73

ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32


Consensus pattern (30 bp):   
TTTGAAGACTCATTGAAGACAATTTCAAGA
Done.