Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010580.1 Corchorus olitorius cultivar O-4 contig10612, 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: 12143
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32


Found at i:53 original size:24 final size:24

Alignment explanation


    Indices: 21--69  Score: 98
    Period size: 24  Copynumber: 2.0  Consensus size: 24

         11 CATGATGTGT

                                    
         21 TTATATCAAAAATAGGGTAGGAAA
          1 TTATATCAAAAATAGGGTAGGAAA

                                    
         45 TTATATCAAAAATAGGGTAGGAAA
          1 TTATATCAAAAATAGGGTAGGAAA

             
         69 T
          1 T

         70 GAAAATTACT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  24   25  1.00

ACGTcount: A:0.49, C:0.04, G:0.20, T:0.27


Consensus pattern (24 bp):   
TTATATCAAAAATAGGGTAGGAAA

Found at i:415 original size:2 final size:2

Alignment explanation


    Indices: 408--453  Score: 92
    Period size: 2  Copynumber: 23.0  Consensus size: 2

        398 TATAATTTTC

                                                                          
        408 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
          1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT

                 
        450 CT CT
          1 CT CT

        454 ATCTATCTAT


Statistics
Matches: 44,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   44  1.00

ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50


Consensus pattern (2 bp):   
CT

Found at i:458 original size:4 final size:4

Alignment explanation


    Indices: 451--479  Score: 58
    Period size: 4  Copynumber: 7.2  Consensus size: 4

        441 TCTCTCTCTC

                                                
        451 TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
          1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA T

        480 TTCTCTAATC


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   4   25  1.00

ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52


Consensus pattern (4 bp):   
TCTA

Done.