Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018527.1 Corchorus olitorius cultivar O-4 contig18560, 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: 8435
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34


Found at i:4480 original size:19 final size:20

Alignment explanation


    Indices: 4451--4488  Score: 60
    Period size: 19  Copynumber: 1.9  Consensus size: 20

       4441 GGGGCCAGAA

                                
       4451 TTTATTAAATAATAATTATT
          1 TTTATTAAATAATAATTATT

                         *     
       4471 TTTA-TAAATAATTATTAT
          1 TTTATTAAATAATAATTAT

       4489 GGTTAGGTGA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  19   13  0.76
  20    4  0.24

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


Consensus pattern (20 bp):   
TTTATTAAATAATAATTATT

Found at i:7100 original size:30 final size:33

Alignment explanation


    Indices: 7065--7135  Score: 83
    Period size: 33  Copynumber: 2.2  Consensus size: 33

       7055 ACCGACCGAG

                                              
       7065 ATATATTAAATGATTTT-TAATTT-TTATATATT
          1 ATATA-TAAATGATTTTATAATTTATTATATATT

                   **  *                    *
       7097 ATATATATTTGTTTTTATAATTTATTATATATA
          1 ATATATAAATGATTTTATAATTTATTATATATT

                  
       7130 ATATAT
          1 ATATAT

       7136 TATATATAAC


Statistics
Matches: 33,  Mismatches: 4, Indels: 3
        0.82            0.10        0.08

Matches are distributed among these distances:
  31    8  0.24
  32   11  0.33
  33   14  0.42

ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59


Consensus pattern (33 bp):   
ATATATAAATGATTTTATAATTTATTATATATT

Found at i:7129 original size:14 final size:14

Alignment explanation


    Indices: 7093--7144  Score: 63
    Period size: 14  Copynumber: 3.9  Consensus size: 14

       7083 AATTTTTATA

                          
       7093 TATTATATAT-ATT
          1 TATTATATATAATT

             *    *       
       7106 TGTT-TTTATAATT
          1 TATTATATATAATT

                         *
       7119 TATTATATATAATA
          1 TATTATATATAATT

                        
       7133 TATTATATATAA
          1 TATTATATATAA

       7145 CTTTTATAAT


Statistics
Matches: 32,  Mismatches: 5, Indels: 3
        0.80            0.12        0.08

Matches are distributed among these distances:
  12    4  0.12
  13    9  0.28
  14   19  0.59

ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58


Consensus pattern (14 bp):   
TATTATATATAATT
Done.