Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002014.1 Corchorus olitorius cultivar O-4 contig02014, 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, 637

Length: 1062
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37


Found at i:104 original size:42 final size:40

Alignment explanation


    Indices: 45--128  Score: 141
    Period size: 42  Copynumber: 2.0  Consensus size: 40

         35 AATCCTAAGA

                                                      
         45 ATTTAATTAATGTAAGTATTTCAGTTATTATAGTATTATTAC
          1 ATTTAATTAATGTAAGTATTTCAGTTATTATA-TA-TATTAC

                                 *                  
         87 ATTTAATTAATGTAAGTATTTTAGTTATTATATATATTAC
          1 ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC

              
        127 AT
          1 AT

        129 CGGAATTAAA


Statistics
Matches: 41,  Mismatches: 1, Indels: 2
        0.93            0.02        0.05

Matches are distributed among these distances:
  40    8  0.20
  41    2  0.05
  42   31  0.76

ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51


Consensus pattern (40 bp):   
ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC

Found at i:287 original size:2 final size:2

Alignment explanation


    Indices: 280--308  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

        270 AAATGAATAC

                                                       
        280 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

        309 CCACAACTTG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

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


Consensus pattern (2 bp):   
TA

Done.