Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016152.1 Corchorus capsularis cultivar CVL-1 contig16173, 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: 9558
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31


Found at i:6707 original size:44 final size:44

Alignment explanation


    Indices: 6644--6732  Score: 178
    Period size: 44  Copynumber: 2.0  Consensus size: 44

       6634 GGGTGAATAC

                                                        
       6644 TTGATAGGATAAGATTATTGTTTGATTATTGAGTCATATGATAG
          1 TTGATAGGATAAGATTATTGTTTGATTATTGAGTCATATGATAG

                                                        
       6688 TTGATAGGATAAGATTATTGTTTGATTATTGAGTCATATGATAG
          1 TTGATAGGATAAGATTATTGTTTGATTATTGAGTCATATGATAG

             
       6732 T
          1 T

       6733 CTTTTGCATG


Statistics
Matches: 45,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  44   45  1.00

ACGTcount: A:0.31, C:0.02, G:0.22, T:0.44


Consensus pattern (44 bp):   
TTGATAGGATAAGATTATTGTTTGATTATTGAGTCATATGATAG

Found at i:8028 original size:19 final size:18

Alignment explanation


    Indices: 8004--8039  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       7994 TGAAGATTTC

                               
       8004 TTGAAGATAATTTGAAGAT
          1 TTGAAGATAA-TTGAAGAT

                    *        
       8023 TTGAAGATCATTGAAGA
          1 TTGAAGATAATTGAAGA

       8040 ATTATTTCAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33


Consensus pattern (18 bp):   
TTGAAGATAATTGAAGAT
Done.