Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011406.1 Corchorus olitorius cultivar O-4 contig11439, 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: 2919
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32


Found at i:2126 original size:10 final size:10

Alignment explanation


    Indices: 2113--2158  Score: 74
    Period size: 10  Copynumber: 4.6  Consensus size: 10

       2103 ACCACCACTT

                      
       2113 TCGGCCACCG
          1 TCGGCCACCG

                      
       2123 TCGGCCACCG
          1 TCGGCCACCG

            *         
       2133 CCGGCCACCG
          1 TCGGCCACCG

            *         
       2143 CCGGCCACCG
          1 TCGGCCACCG

                  
       2153 TCGGCC
          1 TCGGCC

       2159 GCCGGAAAAT


Statistics
Matches: 34,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  10   34  1.00

ACGTcount: A:0.09, C:0.54, G:0.30, T:0.07


Consensus pattern (10 bp):   
TCGGCCACCG

Found at i:2443 original size:6 final size:6

Alignment explanation


    Indices: 2432--2466  Score: 63
    Period size: 6  Copynumber: 6.0  Consensus size: 6

       2422 CTACCCGAAT

                                                     
       2432 TTTTTG TTTTTG TTTTTG TTTTTG TTTTT- TTTTTG
          1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG

       2467 CTATTGGGTT


Statistics
Matches: 28,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   5    5  0.18
   6   23  0.82

ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86


Consensus pattern (6 bp):   
TTTTTG

Found at i:2607 original size:12 final size:12

Alignment explanation


    Indices: 2590--2614  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

       2580 CTTTGTTTTT

                        
       2590 TTGGGTTGAATG
          1 TTGGGTTGAATG

                        
       2602 TTGGGTTGAATG
          1 TTGGGTTGAATG

             
       2614 T
          1 T

       2615 ATTTTTTTGC


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44


Consensus pattern (12 bp):   
TTGGGTTGAATG
Done.