Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021064.1 Corchorus olitorius cultivar O-4 contig21097, 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: 5051
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31


Found at i:170 original size:15 final size:15

Alignment explanation


    Indices: 140--181  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        130 TTACTCTGCT

                            
        140 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
        156 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

               *       
        171 TTGCTTTCTGT
          1 TTGTTTTCTGT

        182 CAATCTCTGT


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.12, C:0.10, G:0.14, T:0.64


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA

Found at i:3954 original size:21 final size:21

Alignment explanation


    Indices: 3911--3962  Score: 70
    Period size: 21  Copynumber: 2.5  Consensus size: 21

       3901 GGCAGTGAAT

                *                
       3911 GGTGATGGCACGGGCATAGCC
          1 GGTGGTGGCACGGGCATAGCC

                             *    
       3932 GGTGGTGGCACGGGC-TTGACC
          1 GGTGGTGGCACGGGCATAG-CC

                      
       3953 GGTGGTGGCA
          1 GGTGGTGGCA

       3963 TGGTAATGGG


Statistics
Matches: 28,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  20    2  0.07
  21   26  0.93

ACGTcount: A:0.13, C:0.21, G:0.48, T:0.17


Consensus pattern (21 bp):   
GGTGGTGGCACGGGCATAGCC
Done.