Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016748.1 Corchorus olitorius cultivar O-4 contig16781, 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: 7363
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34


Found at i:5185 original size:69 final size:69

Alignment explanation


    Indices: 5054--5270  Score: 373
    Period size: 69  Copynumber: 3.1  Consensus size: 69

       5044 TATATATTAA

                                    *                                        
       5054 ATTGATTGATTGATTTGAATATATTTTGATCCAATTAGAATCAATTAGTACTAAAATGATATTAA
          1 ATTGATTGATTGATTTG-A-ATATCTTGATCCAATTAGAATCAATTAGTACT--AATGATATTAA

               *    
       5119 ATTTATTG
         62 ATTGATTG

                                                                             
       5127 ATTGATTGATTGATTTGAATATCTTGATCCAATTAGAATCAATTAGTACTAATGATATTAAATTG
          1 ATTGATTGATTGATTTGAATATCTTGATCCAATTAGAATCAATTAGTACTAATGATATTAAATTG

                
       5192 ATTG
         66 ATTG

                                                                             
       5196 ATTGATTGATTGATTTGAATATCTTGATCCAATTAGAATCAATTAGTACTAATGATA-TAAATTG
          1 ATTGATTGATTGATTTGAATATCTTGATCCAATTAGAATCAATTAGTACTAATGATATTAAATTG

                
       5260 ATTG
         66 ATTG

                   
       5264 ATTGATT
          1 ATTGATT

       5271 TGAATATTGA


Statistics
Matches: 142,  Mismatches: 2, Indels: 5
        0.95            0.01        0.03

Matches are distributed among these distances:
  68   18  0.13
  69   75  0.53
  71   31  0.22
  72    1  0.01
  73   17  0.12

ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43


Consensus pattern (69 bp):   
ATTGATTGATTGATTTGAATATCTTGATCCAATTAGAATCAATTAGTACTAATGATATTAAATTG
ATTG

Found at i:5299 original size:10 final size:10

Alignment explanation


    Indices: 5284--5308  Score: 50
    Period size: 10  Copynumber: 2.5  Consensus size: 10

       5274 ATATTGATCA

                      
       5284 AATTAAAATC
          1 AATTAAAATC

                      
       5294 AATTAAAATC
          1 AATTAAAATC

                 
       5304 AATTA
          1 AATTA

       5309 GTATTAATGT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   15  1.00

ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32


Consensus pattern (10 bp):   
AATTAAAATC
Done.