Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019956.1 Corchorus olitorius cultivar O-4 contig19989, 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: 18051
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30


Found at i:9766 original size:31 final size:34

Alignment explanation


    Indices: 9704--9767  Score: 89
    Period size: 35  Copynumber: 1.9  Consensus size: 34

       9694 TTTTCATACT

                              *                
       9704 GAATTCAATCAAACATGTTGTGCCAAAAAAAAAAA
          1 GAATTCAATCAAACATGTAGTG-CAAAAAAAAAAA

                                            
       9739 GAATTCAATCAAACATG-AG-G-AAAAAAAAA
          1 GAATTCAATCAAACATGTAGTGCAAAAAAAAA

       9768 TATTTGTGAA


Statistics
Matches: 28,  Mismatches: 1, Indels: 4
        0.85            0.03        0.12

Matches are distributed among these distances:
  31    9  0.32
  33    1  0.04
  34    1  0.04
  35   17  0.61

ACGTcount: A:0.58, C:0.12, G:0.12, T:0.17


Consensus pattern (34 bp):   
GAATTCAATCAAACATGTAGTGCAAAAAAAAAAA

Found at i:15489 original size:15 final size:17

Alignment explanation


    Indices: 15461--15494  Score: 54
    Period size: 16  Copynumber: 2.1  Consensus size: 17

      15451 AAATAATTAC

                             
      15461 AAATGCTATCATTT-TA
          1 AAATGCTATCATTTCTA

                             
      15477 AAATGCT-TCATTTCTA
          1 AAATGCTATCATTTCTA

              
      15493 AA
          1 AA

      15495 TTCTTTAAAC


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  15    6  0.35
  16   11  0.65

ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41


Consensus pattern (17 bp):   
AAATGCTATCATTTCTA

Done.