Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018046.1 Corchorus olitorius cultivar O-4 contig18079, 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: 5051
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34


Found at i:3123 original size:12 final size:12

Alignment explanation


    Indices: 3106--3131  Score: 52
    Period size: 12  Copynumber: 2.2  Consensus size: 12

       3096 TTTAGATCTA

                        
       3106 TTCTTCTAGTTT
          1 TTCTTCTAGTTT

                        
       3118 TTCTTCTAGTTT
          1 TTCTTCTAGTTT

              
       3130 TT
          1 TT

       3132 AGGCAAGGGT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   14  1.00

ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69


Consensus pattern (12 bp):   
TTCTTCTAGTTT

Found at i:4376 original size:27 final size:24

Alignment explanation


    Indices: 4318--4390  Score: 76
    Period size: 26  Copynumber: 2.9  Consensus size: 24

       4308 TTTTTTAGTC

                                 *  
       4318 TTGCGTTTTGGAAAAAAAAAAGTT
          1 TTGCGTTTTGGAAAAAAAAAAATT

                                       
       4342 TT-CGGTTTTGCGATAAAAAAAAAATT
          1 TTGC-GTTTTG-GA-AAAAAAAAAATT

                      *      *     
       4368 TCTGCGTTTTAGAAAAAGAAAAA
          1 T-TGCGTTTTGGAAAAAAAAAAA

       4391 GAAAAAAATA


Statistics
Matches: 41,  Mismatches: 3, Indels: 9
        0.77            0.06        0.17

Matches are distributed among these distances:
  23    1  0.02
  24    8  0.20
  25   11  0.27
  26   14  0.34
  27    6  0.15
  28    1  0.02

ACGTcount: A:0.44, C:0.07, G:0.18, T:0.32


Consensus pattern (24 bp):   
TTGCGTTTTGGAAAAAAAAAAATT
Done.