Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018011.1 Corchorus olitorius cultivar O-4 contig18044, 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: 13857
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:4627 original size:37 final size:37

Alignment explanation


    Indices: 4577--4647  Score: 126
    Period size: 37  Copynumber: 1.9  Consensus size: 37

       4567 CTTGATTAAC

                                                  
       4577 ATACATGTCTTTTCAAATA-GACATAACTTTATGATCA
          1 ATACATGTCTTTTCAAATATG-CATAACTTTATGATCA

                                              
       4614 ATACATGTCTTTTCAAATATGCATAACTTTATGA
          1 ATACATGTCTTTTCAAATATGCATAACTTTATGA

       4648 ATAAATTATA


Statistics
Matches: 33,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
  37   32  0.97
  38    1  0.03

ACGTcount: A:0.37, C:0.15, G:0.08, T:0.39


Consensus pattern (37 bp):   
ATACATGTCTTTTCAAATATGCATAACTTTATGATCA

Found at i:4933 original size:16 final size:16

Alignment explanation


    Indices: 4912--4943  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       4902 AATGGATCAT

                            
       4912 GGAGTAGGAAACCCAC
          1 GGAGTAGGAAACCCAC

                            
       4928 GGAGTAGGAAACCCAC
          1 GGAGTAGGAAACCCAC

       4944 TATCGAATCA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.38, C:0.25, G:0.31, T:0.06


Consensus pattern (16 bp):   
GGAGTAGGAAACCCAC

Found at i:13391 original size:15 final size:16

Alignment explanation


    Indices: 13371--13408  Score: 60
    Period size: 15  Copynumber: 2.4  Consensus size: 16

      13361 AGGTTGACAG

                            
      13371 AAAACAATTAAAC-AA
          1 AAAACAATTAAACTAA

                           *
      13386 AAAACAATTAAACTAG
          1 AAAACAATTAAACTAA

                   
      13402 AAAACAA
          1 AAAACAA

      13409 AACAAAGTAA


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  15   13  0.62
  16    8  0.38

ACGTcount: A:0.71, C:0.13, G:0.03, T:0.13


Consensus pattern (16 bp):   
AAAACAATTAAACTAA
Done.