Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008249.1 Corchorus olitorius cultivar O-4 contig08276, 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: 11438
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36


Found at i:4426 original size:11 final size:11

Alignment explanation


    Indices: 4410--4445  Score: 54
    Period size: 11  Copynumber: 3.3  Consensus size: 11

       4400 TCTGTTTTTT

                       
       4410 GTTTTTGTTTC
          1 GTTTTTGTTTC

                      *
       4421 GTTTTTGTTTT
          1 GTTTTTGTTTC

                     * 
       4432 GTTTTTGTTGC
          1 GTTTTTGTTTC

               
       4443 GTT
          1 GTT

       4446 GTCAATTTTT


Statistics
Matches: 22,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  11   22  1.00

ACGTcount: A:0.00, C:0.06, G:0.22, T:0.72


Consensus pattern (11 bp):   
GTTTTTGTTTC

Found at i:5536 original size:3 final size:3

Alignment explanation


    Indices: 5528--5556  Score: 58
    Period size: 3  Copynumber: 9.7  Consensus size: 3

       5518 TTTGTTTCAG

                                                  
       5528 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT

       5557 TTACATTATT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   26  1.00

ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69


Consensus pattern (3 bp):   
TTA

Found at i:6901 original size:2 final size:2

Alignment explanation


    Indices: 6896--6935  Score: 80
    Period size: 2  Copynumber: 20.0  Consensus size: 2

       6886 ATATATAGAT

                                                                       
       6896 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
          1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC

       6936 GAAAGATTGA


Statistics
Matches: 38,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   38  1.00

ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00


Consensus pattern (2 bp):   
AC

Found at i:11409 original size:2 final size:2

Alignment explanation


    Indices: 11404--11438  Score: 70
    Period size: 2  Copynumber: 17.5  Consensus size: 2

      11394 ACTTTTTTTA

                                                                
      11404 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   33  1.00

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
AT

Done.