Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010088.1 Corchorus capsularis cultivar CVL-1 contig10109, 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: 11288
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31


Found at i:42 original size:1 final size:1

Alignment explanation


    Indices: 1--26  Score: 52
    Period size: 1  Copynumber: 26.0  Consensus size: 1

                                      
          1 AAAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAA

         27 CTTAAAGAAG


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

Matches are distributed among these distances:
   1   25  1.00

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


Consensus pattern (1 bp):   
A

Found at i:1118 original size:20 final size:20

Alignment explanation


    Indices: 1093--1131  Score: 69
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       1083 CATATAAAAT

                          *     
       1093 AATAATAACTAATTTTTAAA
          1 AATAATAACTAATTATTAAA

                               
       1113 AATAATAACTAATTATTAA
          1 AATAATAACTAATTATTAA

       1132 TTTTAGAAAA


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


Consensus pattern (20 bp):   
AATAATAACTAATTATTAAA

Found at i:8365 original size:2 final size:2

Alignment explanation


    Indices: 8358--8386  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

       8348 CTTTGGCACA

                                                       
       8358 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

       8387 CATACTAGGA


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Done.