Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019104.1 Corchorus olitorius cultivar O-4 contig19137, 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: 3234
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32


Found at i:197 original size:14 final size:13

Alignment explanation


    Indices: 132--196  Score: 87
    Period size: 14  Copynumber: 4.8  Consensus size: 13

        122 ACTCAAAACC

                          
        132 TTTTTGAAAACTCA
          1 TTTTTGAAAA-TCA

                         
        146 TTTTTGAAAATCA
          1 TTTTTGAAAATCA

                           
        159 TTTCTTGAAAA-CAA
          1 TTT-TTGAAAATC-A

                          
        173 TTTCTTGAAAATCA
          1 TTT-TTGAAAATCA

                      
        187 TTTTTGAAAA
          1 TTTTTGAAAA

        197 ACGTCCTTTA


Statistics
Matches: 48,  Mismatches: 0, Indels: 7
        0.87            0.00        0.13

Matches are distributed among these distances:
  13   14  0.29
  14   33  0.69
  15    1  0.02

ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43


Consensus pattern (13 bp):   
TTTTTGAAAATCA

Found at i:198 original size:28 final size:27

Alignment explanation


    Indices: 132--196  Score: 96
    Period size: 28  Copynumber: 2.4  Consensus size: 27

        122 ACTCAAAACC

                        *              
        132 TTTTTGAAAACTCATTTTTGAAAATCA
          1 TTTTTGAAAACTAATTTTTGAAAATCA

                                         
        159 TTTCTTGAAAAC-AATTTCTTGAAAATCA
          1 TTT-TTGAAAACTAATTT-TTGAAAATCA

                      
        187 TTTTTGAAAA
          1 TTTTTGAAAA

        197 ACGTCCTTTA


Statistics
Matches: 35,  Mismatches: 1, Indels: 4
        0.88            0.03        0.10

Matches are distributed among these distances:
  27   14  0.40
  28   21  0.60

ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43


Consensus pattern (27 bp):   
TTTTTGAAAACTAATTTTTGAAAATCA
Done.