Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009368.1 Corchorus olitorius cultivar O-4 contig09398, 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, 777

Length: 1295
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25


Found at i:56 original size:16 final size:16

Alignment explanation


    Indices: 35--67  Score: 66
    Period size: 16  Copynumber: 2.1  Consensus size: 16

         25 CTGAAGATTG

                            
         35 CGGATCAAGCAGAATT
          1 CGGATCAAGCAGAATT

                            
         51 CGGATCAAGCAGAATT
          1 CGGATCAAGCAGAATT

             
         67 C
          1 C

         68 TTGGGGGAAT


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.36, C:0.21, G:0.24, T:0.18


Consensus pattern (16 bp):   
CGGATCAAGCAGAATT

Found at i:127 original size:50 final size:51

Alignment explanation


    Indices: 52--153  Score: 197
    Period size: 50  Copynumber: 2.0  Consensus size: 51

         42 AGCAGAATTC

                                                               
         52 GGATCAAGCAGAATTCTTGGGGGAATACAAAAAA-TTTCCTAGTTTAGTTT
          1 GGATCAAGCAGAATTCTTGGGGGAATACAAAAAATTTTCCTAGTTTAGTTT

                                                               
        102 GGATCAAGCAGAATTCTTGGGGGAATACAAAAAATTTTCCTAGTTTAGTTT
          1 GGATCAAGCAGAATTCTTGGGGGAATACAAAAAATTTTCCTAGTTTAGTTT

             
        153 G
          1 G

        154 TTTAATACAG


Statistics
Matches: 51,  Mismatches: 0, Indels: 1
        0.98            0.00        0.02

Matches are distributed among these distances:
  50   34  0.67
  51   17  0.33

ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32


Consensus pattern (51 bp):   
GGATCAAGCAGAATTCTTGGGGGAATACAAAAAATTTTCCTAGTTTAGTTT
Done.