Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013918.1 Corchorus olitorius cultivar O-4 contig13951, 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: 13823
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31


Found at i:1888 original size:14 final size:14

Alignment explanation


    Indices: 1871--1898  Score: 56
    Period size: 14  Copynumber: 2.0  Consensus size: 14

       1861 TAAGGTGGTA

                          
       1871 AAATTAACAATTTC
          1 AAATTAACAATTTC

                          
       1885 AAATTAACAATTTC
          1 AAATTAACAATTTC

       1899 TTGCTAATTT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   14  1.00

ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36


Consensus pattern (14 bp):   
AAATTAACAATTTC

Found at i:13038 original size:27 final size:27

Alignment explanation


    Indices: 13002--13068  Score: 98
    Period size: 27  Copynumber: 2.5  Consensus size: 27

      12992 AACCCCAAGT

                 *             *     * 
      13002 ATGCAAAAATGACCAAAATGCCCCTGA
          1 ATGCACAAATGACCAAAATACCCCTAA

               *                       
      13029 ATGTACAAATGACCAAAATACCCCTAA
          1 ATGCACAAATGACCAAAATACCCCTAA

                         
      13056 ATGCACAAATGAC
          1 ATGCACAAATGAC

      13069 TAAAGTGAGA


Statistics
Matches: 35,  Mismatches: 5, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  27   35  1.00

ACGTcount: A:0.46, C:0.25, G:0.12, T:0.16


Consensus pattern (27 bp):   
ATGCACAAATGACCAAAATACCCCTAA

Found at i:13679 original size:28 final size:27

Alignment explanation


    Indices: 13637--13691  Score: 76
    Period size: 26  Copynumber: 2.0  Consensus size: 27

      13627 ACTGAGACTA

                      *                  
      13637 GACTCGAAACTGACTCGAAAAAACAAACT
          1 GACTCGAAACCGACTC--AAAAACAAACT

                                       
      13666 GACTC-AAACCGACTCAAAAACAAACT
          1 GACTCGAAACCGACTCAAAAACAAACT

      13692 CAAATAAAAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 3
        0.86            0.03        0.10

Matches are distributed among these distances:
  26   11  0.44
  28    9  0.36
  29    5  0.20

ACGTcount: A:0.49, C:0.27, G:0.11, T:0.13


Consensus pattern (27 bp):   
GACTCGAAACCGACTCAAAAACAAACT
Done.