Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016373.1 Corchorus capsularis cultivar CVL-1 contig16394, 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: 4410
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34


Found at i:1577 original size:18 final size:19

Alignment explanation


    Indices: 1554--1596  Score: 56
    Period size: 16  Copynumber: 2.4  Consensus size: 19

       1544 TTAAAATTTG

                        *      
       1554 AAGAAAAAGGAATA-AAAA
          1 AAGAAAAAGGAAAAGAAAA

                               
       1572 AAG--AAAGGAAAAGAAAA
          1 AAGAAAAAGGAAAAGAAAA

                    
       1589 AAGAAAAA
          1 AAGAAAAA

       1597 ATGGAAAAAT


Statistics
Matches: 21,  Mismatches: 1, Indels: 5
        0.78            0.04        0.19

Matches are distributed among these distances:
  16    8  0.38
  17    7  0.33
  18    3  0.14
  19    3  0.14

ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02


Consensus pattern (19 bp):   
AAGAAAAAGGAAAAGAAAA

Found at i:1580 original size:16 final size:17

Alignment explanation


    Indices: 1559--1594  Score: 56
    Period size: 17  Copynumber: 2.2  Consensus size: 17

       1549 ATTTGAAGAA

                   *         
       1559 AAAGGAATA-AAAAAAG
          1 AAAGGAAAAGAAAAAAG

                             
       1575 AAAGGAAAAGAAAAAAG
          1 AAAGGAAAAGAAAAAAG

               
       1592 AAA
          1 AAA

       1595 AAATGGAAAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  16    8  0.44
  17   10  0.56

ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03


Consensus pattern (17 bp):   
AAAGGAAAAGAAAAAAG

Done.