Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011332.1 Corchorus olitorius cultivar O-4 contig11365, 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: 7770
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31


Found at i:4971 original size:18 final size:18

Alignment explanation


    Indices: 4948--4983  Score: 54
    Period size: 18  Copynumber: 2.0  Consensus size: 18

       4938 CCGACAATCT

                   *          
       4948 CGGTTTCGATCGGTTAGG
          1 CGGTTTCAATCGGTTAGG

                  *           
       4966 CGGTTTTAATCGGTTAGG
          1 CGGTTTCAATCGGTTAGG

       4984 GCGTAACTGG


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.14, C:0.14, G:0.36, T:0.36


Consensus pattern (18 bp):   
CGGTTTCAATCGGTTAGG

Found at i:7116 original size:21 final size:21

Alignment explanation


    Indices: 7090--7130  Score: 66
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       7080 TTGAAGCCCT

                                  
       7090 ATTGGATAC-AAGTGGTACTAA
          1 ATTGGAT-CTAAGTGGTACTAA

                                
       7111 ATTGGATCTAAGTGGTACTA
          1 ATTGGATCTAAGTGGTACTA

       7131 GGGTTTCTAA


Statistics
Matches: 19,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  20    1  0.05
  21   18  0.95

ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32


Consensus pattern (21 bp):   
ATTGGATCTAAGTGGTACTAA
Done.