Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019084.1 Corchorus olitorius cultivar O-4 contig19117, 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: 5148
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33


Found at i:1439 original size:21 final size:20

Alignment explanation


    Indices: 1396--1436  Score: 55
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       1386 TACCAGTTAC

                     *          
       1396 GTTAAATAGTTTACTAAAAA
          1 GTTAAATAGATTACTAAAAA

                                 
       1416 GTTAAATAAGATTATCTAAAA
          1 GTTAAAT-AGATTA-CTAAAA

       1437 GTTTTCAAGT


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  20    7  0.39
  21    5  0.28
  22    6  0.33

ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34


Consensus pattern (20 bp):   
GTTAAATAGATTACTAAAAA

Found at i:1773 original size:21 final size:21

Alignment explanation


    Indices: 1749--1819  Score: 79
    Period size: 21  Copynumber: 3.3  Consensus size: 21

       1739 TAAAATCAAA

                             *   
       1749 AATAAGATTACTAAAAATCTT
          1 AATAAGATTACTAAAAAACTT

                  *    *           
       1770 AATAAGGTTAGGTAAAAACACTT
          1 AATAAGATTA-CTAAAAA-ACTT

                    *            
       1793 AATAAGATGACTAAAAAACTT
          1 AATAAGATTACTAAAAAACTT

            *     
       1814 TATAAG
          1 AATAAG

       1820 GCCAAAAAAG


Statistics
Matches: 41,  Mismatches: 7, Indels: 4
        0.79            0.13        0.08

Matches are distributed among these distances:
  21   18  0.44
  22   12  0.29
  23   11  0.27

ACGTcount: A:0.52, C:0.08, G:0.11, T:0.28


Consensus pattern (21 bp):   
AATAAGATTACTAAAAAACTT
Done.