Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013857.1 Corchorus olitorius cultivar O-4 contig13890, 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: 7412
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29


Found at i:1645 original size:22 final size:23

Alignment explanation


    Indices: 1585--1651  Score: 73
    Period size: 23  Copynumber: 3.0  Consensus size: 23

       1575 TTGAAGATCT

                       *           
       1585 CACTATGAAATTTTGATAACCAA
          1 CACTATGAAATATTGATAACCAA

                    *  *         **
       1608 CACTATGAGATGTTGATAACCTC
          1 CACTATGAAATATTGATAACCAA

                    *             
       1631 CA-TATGATATATTGATAACCA
          1 CACTATGAAATATTGATAACCA

       1652 CGTTATGAAA


Statistics
Matches: 37,  Mismatches: 7, Indels: 1
        0.82            0.16        0.02

Matches are distributed among these distances:
  22   16  0.43
  23   21  0.57

ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31


Consensus pattern (23 bp):   
CACTATGAAATATTGATAACCAA

Found at i:1658 original size:22 final size:22

Alignment explanation


    Indices: 1588--1661  Score: 58
    Period size: 22  Copynumber: 3.3  Consensus size: 22

       1578 AAGATCTCAC

                    *             *
       1588 TATGAAATTTTGATAACCAACAC
          1 TATGAAATATTGATAACC-ACAA

                 *  *         * * 
       1611 TATGAGATGTTGATAACCTCCA
          1 TATGAAATATTGATAACCACAA

                 *              **
       1633 TATGATATATTGATAACCACGT
          1 TATGAAATATTGATAACCACAA

                   
       1655 TATGAAA
          1 TATGAAA

       1662 ATTTAAAAAC


Statistics
Matches: 40,  Mismatches: 11, Indels: 1
        0.77            0.21        0.02

Matches are distributed among these distances:
  22   24  0.60
  23   16  0.40

ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32


Consensus pattern (22 bp):   
TATGAAATATTGATAACCACAA
Done.