Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01003865.1 Corchorus olitorius cultivar O-4 contig03875, 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, 748

Length: 1248
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34


Found at i:835 original size:15 final size:14

Alignment explanation


    Indices: 806--844  Score: 51
    Period size: 15  Copynumber: 2.6  Consensus size: 14

        796 GATCCCTGAC

                            
        806 TATTTTTTTAAAAAAA
          1 TATTTTTTT--AAAAA

                           
        822 TATATTTTTTAAAAA
          1 TAT-TTTTTTAAAAA

                    
        837 TATTTTTT
          1 TATTTTTT

        845 AATAAAAAAA


Statistics
Matches: 22,  Mismatches: 0, Indels: 4
        0.85            0.00        0.15

Matches are distributed among these distances:
  14    5  0.23
  15    8  0.36
  16    3  0.14
  17    6  0.27

ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59


Consensus pattern (14 bp):   
TATTTTTTTAAAAA

Found at i:841 original size:13 final size:14

Alignment explanation


    Indices: 818--846  Score: 51
    Period size: 13  Copynumber: 2.1  Consensus size: 14

        808 TTTTTTTAAA

                          
        818 AAAATATATTTTTT
          1 AAAATATATTTTTT

                          
        832 AAAA-ATATTTTTT
          1 AAAATATATTTTTT

              
        845 AA
          1 AA

        847 TAAAAAAAAA


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  13   11  0.73
  14    4  0.27

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


Consensus pattern (14 bp):   
AAAATATATTTTTT

Found at i:851 original size:15 final size:14

Alignment explanation


    Indices: 809--851  Score: 50
    Period size: 15  Copynumber: 2.9  Consensus size: 14

        799 CCCTGACTAT

                           
        809 TTTTTTAAAAAAATA
          1 TTTTTT-AAAAAATA

                   *       
        824 TATTTTTTAAAAATA
          1 T-TTTTTAAAAAATA

                         
        839 TTTTTTAATAAAA
          1 TTTTTTAA-AAAA

        852 AAAAAATTAT


Statistics
Matches: 24,  Mismatches: 2, Indels: 4
        0.80            0.07        0.13

Matches are distributed among these distances:
  14    6  0.25
  15   13  0.54
  16    5  0.21

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (14 bp):   
TTTTTTAAAAAATA
Done.