Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010869.1 Corchorus olitorius cultivar O-4 contig10901, 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: 6253
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30


Found at i:2213 original size:23 final size:24

Alignment explanation


    Indices: 2183--2229  Score: 87
    Period size: 23  Copynumber: 2.0  Consensus size: 24

       2173 CTTCTTCTAT

                                    
       2183 TACTATAAGAGAGAA-AAGGTAGA
          1 TACTATAAGAGAGAACAAGGTAGA

                                    
       2206 TACTATAAGAGAGAACAAGGTAGA
          1 TACTATAAGAGAGAACAAGGTAGA

       2230 ATCTAGTATA


Statistics
Matches: 23,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  23   15  0.65
  24    8  0.35

ACGTcount: A:0.51, C:0.06, G:0.26, T:0.17


Consensus pattern (24 bp):   
TACTATAAGAGAGAACAAGGTAGA

Found at i:2331 original size:22 final size:22

Alignment explanation


    Indices: 2306--2351  Score: 92
    Period size: 22  Copynumber: 2.1  Consensus size: 22

       2296 TGCTGGTCCA

                                  
       2306 TTTCCCTAGAGGAGGTTTTCTT
          1 TTTCCCTAGAGGAGGTTTTCTT

                                  
       2328 TTTCCCTAGAGGAGGTTTTCTT
          1 TTTCCCTAGAGGAGGTTTTCTT

              
       2350 TT
          1 TT

       2352 AGGTTAGCGC


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   24  1.00

ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48


Consensus pattern (22 bp):   
TTTCCCTAGAGGAGGTTTTCTT

Found at i:3487 original size:24 final size:24

Alignment explanation


    Indices: 3460--3508  Score: 98
    Period size: 24  Copynumber: 2.0  Consensus size: 24

       3450 TTCTCTCCAA

                                    
       3460 AGAAATCTCCTGTTTAATCTATCT
          1 AGAAATCTCCTGTTTAATCTATCT

                                    
       3484 AGAAATCTCCTGTTTAATCTATCT
          1 AGAAATCTCCTGTTTAATCTATCT

             
       3508 A
          1 A

       3509 ATGTGCTTAT


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:0.31, C:0.20, G:0.08, T:0.41


Consensus pattern (24 bp):   
AGAAATCTCCTGTTTAATCTATCT
Done.