Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022389.1 Corchorus olitorius cultivar O-4 contig22422, 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: 5147
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28


Found at i:5045 original size:34 final size:33

Alignment explanation


    Indices: 4937--5114  Score: 191
    Period size: 34  Copynumber: 5.6  Consensus size: 33

       4927 TTTAATTTAA

                                  **          
       4937 TTGACACCTAGAAGTTGTCATATTAA--ATTATC
          1 TTGACACC-AGAAGTTGTCATACAAATTATTATC

                                               
       4969 TTGACACCAGAAGTTGTCATGA-AAATTATTGA-C
          1 TTGACACCAGAAGTTGTCAT-ACAAATTATT-ATC

                   *                          
       5002 -T-AC-CTAGAAGTTGTCATACCAAATTATTATC
          1 TTGACACCAGAAGTTGTCATA-CAAATTATTATC

                                 *           
       5033 TTGACACCAGAAGTTGTCAT-GAAA--ATTA--
          1 TTGACACCAGAAGTTGTCATACAAATTATTATC

                                              
       5061 TTGACACCAGAAGTTGTCATATCAAATTATTATC
          1 TTGACACCAGAAGTTGTCATA-CAAATTATTATC

                                
       5095 TTGACACCAGAAGTTGTCAT
          1 TTGACACCAGAAGTTGTCAT

       5115 GCTGAGGAAA


Statistics
Matches: 125,  Mismatches: 5, Indels: 30
        0.78            0.03        0.19

Matches are distributed among these distances:
  28   20  0.16
  29    1  0.01
  30   21  0.17
  31   25  0.20
  32   18  0.14
  33    6  0.05
  34   34  0.27

ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33


Consensus pattern (33 bp):   
TTGACACCAGAAGTTGTCATACAAATTATTATC

Found at i:5104 original size:62 final size:63

Alignment explanation


    Indices: 4936--5147  Score: 317
    Period size: 62  Copynumber: 3.3  Consensus size: 63

       4926 TTTTAATTTA

                                     *                                     
       4936 ATTGACACCTAGAAGTTGTCATAT-TAA--ATTATCTTGACACCAGAAGTTGTCATGAAAATT
          1 ATTGACACCTAGAAGTTGTCATATCAAATTATTATCTTGACACCAGAAGTTGTCATGAAAATT

                                    *                                       
       4996 ATTGACTACCTAGAAGTTGTCATACCAAATTATTATCTTGACACCAGAAGTTGTCATGAAAATT
          1 ATTGAC-ACCTAGAAGTTGTCATATCAAATTATTATCTTGACACCAGAAGTTGTCATGAAAATT

                                                                             
       5060 ATTGACACC-AGAAGTTGTCATATCAAATTATTATCTTGACACCAGAAGTTGTCATGCTGAGGAA
          1 ATTGACACCTAGAAGTTGTCATATCAAATTATTATCTTGACACCAGAAGTTGTCA---TGA--AA

               
       5124 ATT
         61 ATT

                                  
       5127 ATTGACACC-AGAAGTTGTCAT
          1 ATTGACACCTAGAAGTTGTCAT


Statistics
Matches: 140,  Mismatches: 3, Indels: 11
        0.91            0.02        0.07

Matches are distributed among these distances:
  60    6  0.04
  61   17  0.12
  62   46  0.33
  63    3  0.02
  64   39  0.28
  65    3  0.02
  67   26  0.19

ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32


Consensus pattern (63 bp):   
ATTGACACCTAGAAGTTGTCATATCAAATTATTATCTTGACACCAGAAGTTGTCATGAAAATT
Done.