Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000464.1 Corchorus olitorius cultivar O-4 contig00464, 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, 718

Length: 1198
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29


Found at i:163 original size:19 final size:19

Alignment explanation


    Indices: 123--163  Score: 55
    Period size: 19  Copynumber: 2.2  Consensus size: 19

        113 AGATCATAGT

                          *  * 
        123 AAAACCAAGATAATCAATC
          1 AAAACCAAGATAATAAACC

                   *           
        142 AAAACCAGGATAATAAACC
          1 AAAACCAAGATAATAAACC

               
        161 AAA
          1 AAA

        164 TCAATCAAAT


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  19   19  1.00

ACGTcount: A:0.61, C:0.20, G:0.07, T:0.12


Consensus pattern (19 bp):   
AAAACCAAGATAATAAACC

Found at i:396 original size:28 final size:27

Alignment explanation


    Indices: 326--401  Score: 82
    Period size: 28  Copynumber: 2.7  Consensus size: 27

        316 TCCGACGTTT

                                  *     
        326 AAGGGCAAAACTGTAA-TTTAGTCAACC
          1 AAGGGCAAAAC-GTAATTTTAGCCAACC

                 *     *            *   
        353 AAGGGTAAAATGGTAATTTTAGCCGACC
          1 AAGGGCAAAA-CGTAATTTTAGCCAACC

                                 
        381 AAGGGCAAATACGTAATTTTA
          1 AAGGGCAAA-ACGTAATTTTA

        402 ACATCATAAG


Statistics
Matches: 40,  Mismatches: 6, Indels: 5
        0.78            0.12        0.10

Matches are distributed among these distances:
  27   13  0.32
  28   26  0.65
  29    1  0.03

ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25


Consensus pattern (27 bp):   
AAGGGCAAAACGTAATTTTAGCCAACC
Done.