Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005867.1 Corchorus olitorius cultivar O-4 contig05892, 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, 616

Length: 1028
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42


Found at i:68 original size:12 final size:12

Alignment explanation


    Indices: 51--96  Score: 65
    Period size: 12  Copynumber: 3.8  Consensus size: 12

         41 TTTTATTTTC

                        
         51 AATATTTTCAAT
          1 AATATTTTCAAT

                        
         63 AATATTTTCAAT
          1 AATATTTTCAAT

                    * * 
         75 AATATTTTTATT
          1 AATATTTTCAAT

               *      
         87 AATTTTTTCA
          1 AATATTTTCA

         97 TTTCCATTAA


Statistics
Matches: 30,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  12   30  1.00

ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57


Consensus pattern (12 bp):   
AATATTTTCAAT

Found at i:119 original size:24 final size:24

Alignment explanation


    Indices: 92--187  Score: 183
    Period size: 24  Copynumber: 4.0  Consensus size: 24

         82 TTATTAATTT

                                    
         92 TTTCATTTCCATTAAAATTGAAAA
          1 TTTCATTTCCATTAAAATTGAAAA

                                    
        116 TTTCATTTCCATTAAAATTGAAAA
          1 TTTCATTTCCATTAAAATTGAAAA

                                    
        140 TTTCATTTCCATTAAAATTGAAAA
          1 TTTCATTTCCATTAAAATTGAAAA

                    *               
        164 TTTCATTTTCATTAAAATTGAAAA
          1 TTTCATTTCCATTAAAATTGAAAA

        188 GAAGTAATTT


Statistics
Matches: 71,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  24   71  1.00

ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43


Consensus pattern (24 bp):   
TTTCATTTCCATTAAAATTGAAAA

Found at i:449 original size:18 final size:18

Alignment explanation


    Indices: 428--480  Score: 106
    Period size: 18  Copynumber: 2.9  Consensus size: 18

        418 ATACTTTTAC

                              
        428 TCCTCTTGGTACCGATAT
          1 TCCTCTTGGTACCGATAT

                              
        446 TCCTCTTGGTACCGATAT
          1 TCCTCTTGGTACCGATAT

                             
        464 TCCTCTTGGTACCGATA
          1 TCCTCTTGGTACCGATA

        481 GCGACCCAGG


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   35  1.00

ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38


Consensus pattern (18 bp):   
TCCTCTTGGTACCGATAT
Done.