Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006453.1 Corchorus olitorius cultivar O-4 contig06478, 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: 2263
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31


Found at i:1350 original size:22 final size:23

Alignment explanation


    Indices: 1322--1364  Score: 79
    Period size: 22  Copynumber: 1.9  Consensus size: 23

       1312 TAGAAGGAGT

                                   
       1322 AGGTTTTACT-TTCCTACCAGAA
          1 AGGTTTTACTATTCCTACCAGAA

                                 
       1344 AGGTTTTACTATTCCTACCAG
          1 AGGTTTTACTATTCCTACCAG

       1365 GATTAGGATT


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  22   10  0.50
  23   10  0.50

ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37


Consensus pattern (23 bp):   
AGGTTTTACTATTCCTACCAGAA

Found at i:2137 original size:30 final size:30

Alignment explanation


    Indices: 2064--2140  Score: 120
    Period size: 30  Copynumber: 2.5  Consensus size: 30

       2054 GAGTATGACG

                         *                 
       2064 AGGAGGAAGATTCCGATCTCTTTGTTTGTGA
          1 AGGA-GAAGATTCTGATCTCTTTGTTTGTGA

                                          
       2095 AGGAGAAGATTCTGATCTCTTTGTTTGTGA
          1 AGGAGAAGATTCTGATCTCTTTGTTTGTGA

                             
       2125 AGGAG-AGAATTCTGAT
          1 AGGAGAAG-ATTCTGAT

       2141 TTTGTCATTA


Statistics
Matches: 44,  Mismatches: 1, Indels: 3
        0.92            0.02        0.06

Matches are distributed among these distances:
  29    2  0.05
  30   38  0.86
  31    4  0.09

ACGTcount: A:0.26, C:0.10, G:0.29, T:0.35


Consensus pattern (30 bp):   
AGGAGAAGATTCTGATCTCTTTGTTTGTGA
Done.