Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015130.1 Corchorus olitorius cultivar O-4 contig15163, 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: 9729
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33


Found at i:1344 original size:45 final size:45

Alignment explanation


    Indices: 1207--1332  Score: 225
    Period size: 45  Copynumber: 2.8  Consensus size: 45

       1197 AGCAACAATT

                                                         
       1207 AATATTAGCTTTATTTTGATGAATGATCTAGAGATGGAGGAGTAG
          1 AATATTAGCTTTATTTTGATGAATGATCTAGAGATGGAGGAGTAG

                                          *              
       1252 AATATTAGCTTTATTTTGATGAATGATCTAAAGATGGAGGAGTAG
          1 AATATTAGCTTTATTTTGATGAATGATCTAGAGATGGAGGAGTAG

                                    * *         
       1297 AATATTAGCTTTATTTTGATGAATTACCTAGAGATG
          1 AATATTAGCTTTATTTTGATGAATGATCTAGAGATG

       1333 CACTTTTAGA


Statistics
Matches: 77,  Mismatches: 4, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  45   77  1.00

ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37


Consensus pattern (45 bp):   
AATATTAGCTTTATTTTGATGAATGATCTAGAGATGGAGGAGTAG

Found at i:3258 original size:13 final size:13

Alignment explanation


    Indices: 3236--3267  Score: 57
    Period size: 13  Copynumber: 2.5  Consensus size: 13

       3226 AAGACATTGA

                         
       3236 AATAGT-ATTAAT
          1 AATAGTAATTAAT

                         
       3248 AATAGTAATTAAT
          1 AATAGTAATTAAT

                   
       3261 AATAGTA
          1 AATAGTA

       3268 TTATTACAAT


Statistics
Matches: 19,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  12    6  0.32
  13   13  0.68

ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38


Consensus pattern (13 bp):   
AATAGTAATTAAT
Done.