Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024330.1 Corchorus olitorius cultivar O-4 contig24363, 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, 670

Length: 1118
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31


Found at i:153 original size:13 final size:13

Alignment explanation


    Indices: 135--163  Score: 58
    Period size: 13  Copynumber: 2.2  Consensus size: 13

        125 TTTCGTCGGC

                         
        135 CTTAGACCCCCAA
          1 CTTAGACCCCCAA

                         
        148 CTTAGACCCCCAA
          1 CTTAGACCCCCAA

               
        161 CTT
          1 CTT

        164 GAACACCTAA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   16  1.00

ACGTcount: A:0.28, C:0.45, G:0.07, T:0.21


Consensus pattern (13 bp):   
CTTAGACCCCCAA

Found at i:521 original size:22 final size:22

Alignment explanation


    Indices: 493--534  Score: 66
    Period size: 22  Copynumber: 1.9  Consensus size: 22

        483 TTTTCCGCAA

                     *     *      
        493 AAGTCCTGGGCAGGAGTTGTCC
          1 AAGTCCTGGACAGGACTTGTCC

                                
        515 AAGTCCTGGACAGGACTTGT
          1 AAGTCCTGGACAGGACTTGT

        535 TCTGAATTTT


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  22   18  1.00

ACGTcount: A:0.21, C:0.21, G:0.33, T:0.24


Consensus pattern (22 bp):   
AAGTCCTGGACAGGACTTGTCC

Found at i:590 original size:21 final size:21

Alignment explanation


    Indices: 564--606  Score: 68
    Period size: 21  Copynumber: 2.0  Consensus size: 21

        554 TTCAACAGAC

                            *    
        564 CAAGTCCTGGACAGGAGTTGT
          1 CAAGTCCTGGACAGGACTTGT

                      *          
        585 CAAGTCCTGGGCAGGACTTGT
          1 CAAGTCCTGGACAGGACTTGT

             
        606 C
          1 C

        607 CTGTTTTAGG


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  21   20  1.00

ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23


Consensus pattern (21 bp):   
CAAGTCCTGGACAGGACTTGT
Done.