Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017344.1 Corchorus olitorius cultivar O-4 contig17377, 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: 15688
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31


Found at i:1412 original size:8 final size:8

Alignment explanation


    Indices: 1399--1431  Score: 66
    Period size: 8  Copynumber: 4.1  Consensus size: 8

       1389 CAATTAAAGC

                    
       1399 TCAATTCT
          1 TCAATTCT

                    
       1407 TCAATTCT
          1 TCAATTCT

                    
       1415 TCAATTCT
          1 TCAATTCT

                    
       1423 TCAATTCT
          1 TCAATTCT

             
       1431 T
          1 T

       1432 GCTTCTTGGA


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

Matches are distributed among these distances:
   8   25  1.00

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


Consensus pattern (8 bp):   
TCAATTCT

Found at i:6077 original size:23 final size:20

Alignment explanation


    Indices: 6025--6063  Score: 69
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       6015 TTTAAAAAAA

                *               
       6025 TTAATAATTAGTTATTATTT
          1 TTAAAAATTAGTTATTATTT

                               
       6045 TTAAAAATTAGTTATTATT
          1 TTAAAAATTAGTTATTATT

       6064 ATTTTATATG


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  20   18  1.00

ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56


Consensus pattern (20 bp):   
TTAAAAATTAGTTATTATTT

Found at i:10402 original size:20 final size:18

Alignment explanation


    Indices: 10363--10398  Score: 54
    Period size: 18  Copynumber: 1.9  Consensus size: 18

      10353 CTAGCCCTAA

                          *   
      10363 AACTAGAAGAAAAACTAG
          1 AACTAGAAGAAAAAATAG

                              
      10381 AACTAGAAGAGAAAAATA
          1 AACTAGAAGA-AAAAATA

      10399 AGAAGAGAAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18   10  0.62
  19    6  0.38

ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11


Consensus pattern (18 bp):   
AACTAGAAGAAAAAATAG

Found at i:10970 original size:8 final size:8

Alignment explanation


    Indices: 10957--10981  Score: 50
    Period size: 8  Copynumber: 3.1  Consensus size: 8

      10947 ATTAAAGCTC

                    
      10957 CAATTCTT
          1 CAATTCTT

                    
      10965 CAATTCTT
          1 CAATTCTT

                    
      10973 CAATTCTT
          1 CAATTCTT

             
      10981 C
          1 C

      10982 CTCTTGAAAT


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   8   17  1.00

ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48


Consensus pattern (8 bp):   
CAATTCTT
Done.