Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011933.1 Corchorus olitorius cultivar O-4 contig11966, 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: 13432
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29


Found at i:1520 original size:21 final size:22

Alignment explanation


    Indices: 1485--1526  Score: 68
    Period size: 21  Copynumber: 2.0  Consensus size: 22

       1475 GTAGGCTTTA

                                  
       1485 ATGGAATGCATGAATGAATGCC
          1 ATGGAATGCATGAATGAATGCC

                *                
       1507 ATGGCATG-ATGAATGAATGC
          1 ATGGAATGCATGAATGAATGC

       1527 ATGAGGCAAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  21   12  0.63
  22    7  0.37

ACGTcount: A:0.36, C:0.12, G:0.29, T:0.24


Consensus pattern (22 bp):   
ATGGAATGCATGAATGAATGCC

Found at i:8357 original size:28 final size:28

Alignment explanation


    Indices: 8297--8361  Score: 71
    Period size: 28  Copynumber: 2.4  Consensus size: 28

       8287 TGTCAGCTTA

                        *           * * 
       8297 AAATGACCAAAATGCCCCTAGATTTTGC
          1 AAATGACCAAAACGCCCCTAGATTATCC

                                         
       8325 AAATGACCAAAACGCCCCTAG-TTGATCC
          1 AAATGACCAAAACGCCCCTAGATT-ATCC

            *         
       8353 TAATG-CCAA
          1 AAATGACCAA

       8362 TTAAAAAAAA


Statistics
Matches: 32,  Mismatches: 4, Indels: 3
        0.82            0.10        0.08

Matches are distributed among these distances:
  27    6  0.19
  28   26  0.81

ACGTcount: A:0.37, C:0.28, G:0.14, T:0.22


Consensus pattern (28 bp):   
AAATGACCAAAACGCCCCTAGATTATCC
Done.