Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023814.1 Corchorus olitorius cultivar O-4 contig23847, 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: 3479
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32


Found at i:1928 original size:15 final size:17

Alignment explanation


    Indices: 1910--1955  Score: 60
    Period size: 16  Copynumber: 2.8  Consensus size: 17

       1900 AATGCAATGC

                             
       1910 ATGCAAACAAAAAA-A-
          1 ATGCAAACAAAAAATAT

                    *         
       1925 ATGCAACAAAAAAAATAT
          1 ATGCAA-ACAAAAAATAT

                         
       1943 ATGCAAACAAAAA
          1 ATGCAAACAAAAA

       1956 TGCAATTTTT


Statistics
Matches: 26,  Mismatches: 2, Indels: 4
        0.81            0.06        0.12

Matches are distributed among these distances:
  15    6  0.23
  16    7  0.27
  17    7  0.27
  18    6  0.23

ACGTcount: A:0.70, C:0.13, G:0.07, T:0.11


Consensus pattern (17 bp):   
ATGCAAACAAAAAATAT

Found at i:1939 original size:18 final size:19

Alignment explanation


    Indices: 1913--1955  Score: 52
    Period size: 18  Copynumber: 2.3  Consensus size: 19

       1903 GCAATGCATG

                *              
       1913 CAAACAAAAAAAATGC-AA
          1 CAAAAAAAAAAAATGCAAA

                     * *       
       1931 CAAAAAAAATATATGCAAA
          1 CAAAAAAAAAAAATGCAAA

                  
       1950 CAAAAA
          1 CAAAAA

       1956 TGCAATTTTT


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  18   13  0.62
  19    8  0.38

ACGTcount: A:0.72, C:0.14, G:0.05, T:0.09


Consensus pattern (19 bp):   
CAAAAAAAAAAAATGCAAA
Done.