Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018104.1 Corchorus olitorius cultivar O-4 contig18137, 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: 6458
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31


Found at i:1705 original size:23 final size:23

Alignment explanation


    Indices: 1678--1721  Score: 63
    Period size: 23  Copynumber: 1.9  Consensus size: 23

       1668 GTTCATTTAT

                                    
       1678 ATTAT-ATATTATTATATATAATA
          1 ATTATAATATTATT-TATATAATA

                    *            
       1701 ATTATAATTTTATTTATATAA
          1 ATTATAATATTATTTATATAA

       1722 ATATTAAAAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  23   12  0.63
  24    7  0.37

ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55


Consensus pattern (23 bp):   
ATTATAATATTATTTATATAATA

Found at i:1727 original size:23 final size:22

Alignment explanation


    Indices: 1676--1727  Score: 61
    Period size: 23  Copynumber: 2.3  Consensus size: 22

       1666 ATGTTCATTT

                                  
       1676 ATATTATATATTATTATATATA
          1 ATATTATATATTATTATATATA

                       *             
       1698 ATAATTATAATTTTATT-TATATAA
          1 AT-ATTAT-ATATTATTATATAT-A

                  
       1722 ATATTA
          1 ATATTA

       1728 AAAATATATA


Statistics
Matches: 26,  Mismatches: 1, Indels: 5
        0.81            0.03        0.16

Matches are distributed among these distances:
  22    2  0.08
  23   14  0.54
  24   10  0.38

ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54


Consensus pattern (22 bp):   
ATATTATATATTATTATATATA

Found at i:2785 original size:12 final size:13

Alignment explanation


    Indices: 2768--2809  Score: 52
    Period size: 12  Copynumber: 3.4  Consensus size: 13

       2758 TTCATGCACC

                         
       2768 CAAAACATTTAT-
          1 CAAAACATTTATA

                         
       2780 CAAAACATTT-TA
          1 CAAAACATTTATA

                *        
       2792 CAAATCATTTATA
          1 CAAAACATTTATA

            *    
       2805 TAAAA
          1 CAAAA

       2810 GCAGCAAATA


Statistics
Matches: 25,  Mismatches: 3, Indels: 3
        0.81            0.10        0.10

Matches are distributed among these distances:
  11    1  0.04
  12   19  0.76
  13    5  0.20

ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33


Consensus pattern (13 bp):   
CAAAACATTTATA
Done.