Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023866.1 Corchorus olitorius cultivar O-4 contig23899, 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: 19170
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:1250 original size:1 final size:1

Alignment explanation


    Indices: 1246--1279  Score: 68
    Period size: 1  Copynumber: 34.0  Consensus size: 1

       1236 AGGTTTTTAT

                                              
       1246 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

       1280 TACATTATGT


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

Found at i:12576 original size:5 final size:5

Alignment explanation


    Indices: 12567--12605  Score: 60
    Period size: 5  Copynumber: 7.8  Consensus size: 5

      12557 CTCAAAAGGA

                *     *                                   
      12567 AAAAA AAAAA AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
          1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA

      12606 AAGAAAGAAG


Statistics
Matches: 33,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
   5   33  1.00

ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00


Consensus pattern (5 bp):   
AAAAC

Found at i:14536 original size:13 final size:13

Alignment explanation


    Indices: 14518--14543  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

      14508 ATAGTGATTT

                         
      14518 TAAGCAGTTTTTA
          1 TAAGCAGTTTTTA

                         
      14531 TAAGCAGTTTTTA
          1 TAAGCAGTTTTTA

      14544 GAGTAACCGA


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46


Consensus pattern (13 bp):   
TAAGCAGTTTTTA
Done.