Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020443.1 Corchorus olitorius cultivar O-4 contig20476, 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: 6236
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35


Found at i:1359 original size:16 final size:16

Alignment explanation


    Indices: 1338--1371  Score: 52
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       1328 AACACTTAAA

                             
       1338 TTTCTAT-TTTTAATTT
          1 TTTCTATCTTTT-ATTT

                            
       1354 TTTCTATCTTTTATTT
          1 TTTCTATCTTTTATTT

              
       1370 TT
          1 TT

       1372 ATTTCGTTTA


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  16   13  0.76
  17    4  0.24

ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76


Consensus pattern (16 bp):   
TTTCTATCTTTTATTT

Found at i:2920 original size:30 final size:31

Alignment explanation


    Indices: 2878--2958  Score: 91
    Period size: 30  Copynumber: 2.7  Consensus size: 31

       2868 TTGAGAAGTT

                                            
       2878 TGGTAAGG-TTGTGAAAGTTGA-GAAAAAGAA
          1 TGGTAAGGTTTGTGAAAGTTGAGGAAAAAG-A

                                       * *  
       2908 TGGT-AGGTTTGTGAGAA-TTGAGGAAGATGA
          1 TGGTAAGGTTTGTGA-AAGTTGAGGAAAAAGA

                                  
       2938 TGGTAAGGTTTG-GAAAGTTGA
          1 TGGTAAGGTTTGTGAAAGTTGA

       2959 AAAGAAAAAT


Statistics
Matches: 44,  Mismatches: 2, Indels: 10
        0.79            0.04        0.18

Matches are distributed among these distances:
  29    5  0.11
  30   25  0.57
  31   14  0.32

ACGTcount: A:0.35, C:0.00, G:0.37, T:0.28


Consensus pattern (31 bp):   
TGGTAAGGTTTGTGAAAGTTGAGGAAAAAGA
Done.