Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013198.1 Corchorus olitorius cultivar O-4 contig13231, 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: 1671
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:86 original size:21 final size:21

Alignment explanation


    Indices: 60--151  Score: 141
    Period size: 21  Copynumber: 4.4  Consensus size: 21

         50 TGCTAGAAGT

                                  
         60 TCATTGGAGCAA-GTTCCAAGC
          1 TCATTGGAG-AAGGTTCCAAGC

                                *
         81 TCATTGGAGAAGGTTCCAAGT
          1 TCATTGGAGAAGGTTCCAAGC

                                *
        102 TCATTGGAGAAGGTTCCAAGA
          1 TCATTGGAGAAGGTTCCAAGC

                           *     
        123 TCATTGGAGAAGGTTTCAAGC
          1 TCATTGGAGAAGGTTCCAAGC

                    
        144 TCATTGGA
          1 TCATTGGA

        152 ATTGCCTAAG


Statistics
Matches: 66,  Mismatches: 4, Indels: 2
        0.92            0.06        0.03

Matches are distributed among these distances:
  20    2  0.03
  21   64  0.97

ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27


Consensus pattern (21 bp):   
TCATTGGAGAAGGTTCCAAGC

Found at i:1534 original size:21 final size:21

Alignment explanation


    Indices: 1510--1584  Score: 114
    Period size: 21  Copynumber: 3.6  Consensus size: 21

       1500 CTTAGGCAAT

                    *    *       
       1510 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAACTTGGAACCTTC

                    **           
       1531 TCCAATGATTTTGGAACCTTC
          1 TCCAATGAACTTGGAACCTTC

                                 
       1552 TCCAATGAACTTGGAACCTTC
          1 TCCAATGAACTTGGAACCTTC

                        
       1573 TCCAATGAACTT
          1 TCCAATGAACTT

       1585 CTAGCATCTT


Statistics
Matches: 49,  Mismatches: 5, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  21   49  1.00

ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32


Consensus pattern (21 bp):   
TCCAATGAACTTGGAACCTTC
Done.