Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018626.1 Corchorus olitorius cultivar O-4 contig18659, 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: 5539
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34


Found at i:1647 original size:22 final size:22

Alignment explanation


    Indices: 1622--1689  Score: 136
    Period size: 22  Copynumber: 3.1  Consensus size: 22

       1612 TAGAATTTGA

                                  
       1622 TTGTTTTTGGATTAATCTTATT
          1 TTGTTTTTGGATTAATCTTATT

                                  
       1644 TTGTTTTTGGATTAATCTTATT
          1 TTGTTTTTGGATTAATCTTATT

                                  
       1666 TTGTTTTTGGATTAATCTTATT
          1 TTGTTTTTGGATTAATCTTATT

              
       1688 TT
          1 TT

       1690 CCCCAATTTT


Statistics
Matches: 46,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   46  1.00

ACGTcount: A:0.18, C:0.04, G:0.13, T:0.65


Consensus pattern (22 bp):   
TTGTTTTTGGATTAATCTTATT

Found at i:2936 original size:22 final size:21

Alignment explanation


    Indices: 2908--2961  Score: 60
    Period size: 19  Copynumber: 2.6  Consensus size: 21

       2898 GAACTTCGTG

                                  
       2908 TTTGAAGACTTATTGAAGATAA
          1 TTTGAAGA-TTATTGAAGATAA

                               * 
       2930 TTTGAAGA-T-TTGAAGATCA
          1 TTTGAAGATTATTGAAGATAA

                          
       2949 -TTGAAGAATTATT
          1 TTTGAAG-ATTATT

       2962 TCAAGAAGCA


Statistics
Matches: 28,  Mismatches: 1, Indels: 7
        0.78            0.03        0.19

Matches are distributed among these distances:
  18    6  0.21
  19   10  0.36
  20    2  0.07
  21    2  0.07
  22    8  0.29

ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39


Consensus pattern (21 bp):   
TTTGAAGATTATTGAAGATAA

Done.