Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015959.1 Corchorus olitorius cultivar O-4 contig15992, 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: 2695
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33


Found at i:790 original size:33 final size:31

Alignment explanation


    Indices: 684--829  Score: 123
    Period size: 33  Copynumber: 4.5  Consensus size: 31

        674 GAGTAATTCT

                         *         *         
        684 AAATCTGTTTTAGATGTTGTTTGCGAT-AATAC
          1 AAATCTGTTTT-GGTGTTGTTTGTGATGAA-AC

                *  **                     *  
        716 TAAACCTAATTTGAGTGTTGTTTGTGATGACAC
          1 -AAATCTGTTTTG-GTGTTGTTTGTGATGAAAC

                                             
        749 TAAATCTGTTTTAGGTGTTGTTTGTGATGAAAC
          1 -AAATCTGTTTT-GGTGTTGTTTGTGATGAAAC

                             * **             
        782 AAATTCTGTTTTGGATGCTAATTGTGATGAAAAC
          1 AAA-TCTGTTTTGG-TGTTGTTTGTGATG-AAAC

                          
        816 AAATCTGTTTTGGT
          1 AAATCTGTTTTGGT

        830 TGATCATAGC


Statistics
Matches: 94,  Mismatches: 13, Indels: 13
        0.78            0.11        0.11

Matches are distributed among these distances:
  32    7  0.07
  33   78  0.83
  34    9  0.10

ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42


Consensus pattern (31 bp):   
AAATCTGTTTTGGTGTTGTTTGTGATGAAAC

Found at i:2644 original size:21 final size:21

Alignment explanation


    Indices: 2618--2689  Score: 144
    Period size: 21  Copynumber: 3.4  Consensus size: 21

       2608 TGCTAGAAGT

                                 
       2618 TCATTGGAGCAAGTTCCAAGC
          1 TCATTGGAGCAAGTTCCAAGC

                                 
       2639 TCATTGGAGCAAGTTCCAAGC
          1 TCATTGGAGCAAGTTCCAAGC

                                 
       2660 TCATTGGAGCAAGTTCCAAGC
          1 TCATTGGAGCAAGTTCCAAGC

                     
       2681 TCATTGGAG
          1 TCATTGGAG

       2690 AAGGTT


Statistics
Matches: 51,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   51  1.00

ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25


Consensus pattern (21 bp):   
TCATTGGAGCAAGTTCCAAGC
Done.