Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012370.1 Corchorus capsularis cultivar CVL-1 contig12391, 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: 21318
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31


Found at i:27 original size:15 final size:18

Alignment explanation


    Indices: 1--37  Score: 53
    Period size: 16  Copynumber: 2.2  Consensus size: 18

                              
          1 AAAAGAACTAT-G-TTAA
          1 AAAAGAACTATGGCTTAA

                              
         17 AAAAGAA-TATGGCTTAA
          1 AAAAGAACTATGGCTTAA

                
         34 AAAA
          1 AAAA

         38 ATAAAAAACT


Statistics
Matches: 19,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  15    3  0.16
  16    8  0.42
  17    8  0.42

ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22


Consensus pattern (18 bp):   
AAAAGAACTATGGCTTAA

Found at i:8900 original size:37 final size:37

Alignment explanation


    Indices: 8850--8925  Score: 152
    Period size: 37  Copynumber: 2.1  Consensus size: 37

       8840 AACATAAACT

                                                 
       8850 ATTCAAATCAATTTACTTTAAGAATTTTAAGCATTCA
          1 ATTCAAATCAATTTACTTTAAGAATTTTAAGCATTCA

                                                 
       8887 ATTCAAATCAATTTACTTTAAGAATTTTAAGCATTCA
          1 ATTCAAATCAATTTACTTTAAGAATTTTAAGCATTCA

              
       8924 AT
          1 AT

       8926 GAACTAATGT


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  37   39  1.00

ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41


Consensus pattern (37 bp):   
ATTCAAATCAATTTACTTTAAGAATTTTAAGCATTCA

Found at i:13748 original size:1 final size:1

Alignment explanation


    Indices: 13744--13777  Score: 68
    Period size: 1  Copynumber: 34.0  Consensus size: 1

      13734 CACTTTTTGT

                                              
      13744 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

      13778 TTAATTAATT


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   33  1.00

ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00


Consensus pattern (1 bp):   
A

Done.