Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020272.1 Corchorus olitorius cultivar O-4 contig20305, 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: 11487
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34


Found at i:2093 original size:15 final size:15

Alignment explanation


    Indices: 2063--2104  Score: 75
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       2053 TTACTTTGTT

                            
       2063 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
       2079 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

                       
       2094 TTGTTTTCTGT
          1 TTGTTTTCTGT

       2105 CAACCTCTGT


Statistics
Matches: 26,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  15   17  0.65
  16    9  0.35

ACGTcount: A:0.12, C:0.07, G:0.14, T:0.67


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA

Found at i:2856 original size:28 final size:30

Alignment explanation


    Indices: 2811--2878  Score: 77
    Period size: 30  Copynumber: 2.3  Consensus size: 30

       2801 AAAAATGACA

                *                         
       2811 CGTGGCACGTGGCA-TTTTT-AACACGTGG
          1 CGTGCCACGTGGCATTTTTTGAACACGTGG

                       * *       *        
       2839 CGTGCCACGTGTCCTTTTTTGTACACGTGG
          1 CGTGCCACGTGGCATTTTTTGAACACGTGG

             *        
       2869 CATGCCACGT
          1 CGTGCCACGT

       2879 CGGATGCCGT


Statistics
Matches: 33,  Mismatches: 5, Indels: 2
        0.82            0.12        0.05

Matches are distributed among these distances:
  28   11  0.33
  29    5  0.15
  30   17  0.52

ACGTcount: A:0.15, C:0.26, G:0.28, T:0.31


Consensus pattern (30 bp):   
CGTGCCACGTGGCATTTTTTGAACACGTGG
Done.