Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01004448.1 Corchorus olitorius cultivar O-4 contig04463, 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, 758

Length: 1264
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33


Found at i:272 original size:11 final size:11

Alignment explanation


    Indices: 247--283  Score: 58
    Period size: 11  Copynumber: 3.4  Consensus size: 11

        237 GTATAAGTCA

                       
        247 ACAGACAATTC
          1 ACAGACAATTC

                       
        258 ACAG-CAATTC
          1 ACAGACAATTC

                        
        268 AACAGACAATTC
          1 -ACAGACAATTC

                
        280 ACAG
          1 ACAG

        284 CAACTTCTTG


Statistics
Matches: 24,  Mismatches: 0, Indels: 4
        0.86            0.00        0.14

Matches are distributed among these distances:
  10    6  0.25
  11   12  0.50
  12    6  0.25

ACGTcount: A:0.46, C:0.27, G:0.11, T:0.16


Consensus pattern (11 bp):   
ACAGACAATTC

Found at i:272 original size:22 final size:22

Alignment explanation


    Indices: 244--286  Score: 86
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        234 AGAGTATAAG

                                  
        244 TCAACAGACAATTCACAGCAAT
          1 TCAACAGACAATTCACAGCAAT

                                 
        266 TCAACAGACAATTCACAGCAA
          1 TCAACAGACAATTCACAGCAA

        287 CTTCTTGGGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   21  1.00

ACGTcount: A:0.47, C:0.28, G:0.09, T:0.16


Consensus pattern (22 bp):   
TCAACAGACAATTCACAGCAAT

Found at i:279 original size:12 final size:12

Alignment explanation


    Indices: 244--280  Score: 60
    Period size: 12  Copynumber: 3.2  Consensus size: 12

        234 AGAGTATAAG

                        
        244 TCAACAGACAAT
          1 TCAACAGACAAT

                        
        256 TC-ACAG-CAAT
          1 TCAACAGACAAT

                        
        266 TCAACAGACAAT
          1 TCAACAGACAAT

               
        278 TCA
          1 TCA

        281 CAGCAACTTC


Statistics
Matches: 23,  Mismatches: 0, Indels: 4
        0.85            0.00        0.15

Matches are distributed among these distances:
  10    6  0.26
  11    8  0.35
  12    9  0.39

ACGTcount: A:0.46, C:0.27, G:0.08, T:0.19


Consensus pattern (12 bp):   
TCAACAGACAAT
Done.