Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003958.1 Corchorus capsularis cultivar CVL-1 contig03966, 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: 2513
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38


Found at i:2374 original size:25 final size:24

Alignment explanation


    Indices: 2334--2393  Score: 77
    Period size: 25  Copynumber: 2.5  Consensus size: 24

       2324 TTCAAACCCT

                       *       *     
       2334 AAACTTCATTTCTAACAACTTCTTC
          1 AAACTTCATTTTTAACAA-ATCTTC

                                    
       2359 AAACTTCATTTTTAACAAATCTTC
          1 AAACTTCATTTTTAACAAATCTTC

                  *     
       2383 AAA-TTTATTTT
          1 AAACTTCATTTT

       2394 CCTTCATTTT


Statistics
Matches: 32,  Mismatches: 3, Indels: 2
        0.86            0.08        0.05

Matches are distributed among these distances:
  23    7  0.22
  24    8  0.25
  25   17  0.53

ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45


Consensus pattern (24 bp):   
AAACTTCATTTTTAACAAATCTTC

Found at i:2431 original size:26 final size:26

Alignment explanation


    Indices: 2402--2469  Score: 109
    Period size: 26  Copynumber: 2.6  Consensus size: 26

       2392 TTCCTTCATT

                                      
       2402 TTAATCATAAACTAATTAAATACTAA
          1 TTAATCATAAACTAATTAAATACTAA

                 *            *       
       2428 TTAATAATAAACTAATTAGATACTAA
          1 TTAATCATAAACTAATTAAATACTAA

                *           
       2454 TTAAACATAAACTAAT
          1 TTAATCATAAACTAAT

       2470 AAACTAAGTA


Statistics
Matches: 38,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  26   38  1.00

ACGTcount: A:0.54, C:0.10, G:0.01, T:0.34


Consensus pattern (26 bp):   
TTAATCATAAACTAATTAAATACTAA
Done.