Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010359.1 Corchorus olitorius cultivar O-4 contig10391, 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: 3072
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32


Found at i:2214 original size:27 final size:25

Alignment explanation


    Indices: 2185--2299  Score: 81
    Period size: 27  Copynumber: 4.3  Consensus size: 25

       2175 ACCACACTGC

                               *     
       2185 CCCCTGAAGTACAAATGACTAAAAT
          1 CCCCTGAAGTACAAATGACCAAAAT

                    **   *             
       2210 ACCCCTAGGTGTAAAAATGACCAAAAT
          1 -CCCCT-GAAGTACAAATGACCAAAAT

                         *              
       2237 GCCCCTGGACA-TGCAAATGACCAAAAT
          1 -CCCCT-GA-AGTACAAATGACCAAAAT

                                  *     
       2264 ACCCCTGAACG-AGCAAATGACTAAAAT
          1 -CCCCTGAA-GTA-CAAATGACCAAAAT

                     
       2291 CCCCCTGAA
          1 -CCCCTGAA

       2300 TGACCTCAAA


Statistics
Matches: 70,  Mismatches: 14, Indels: 9
        0.75            0.15        0.10

Matches are distributed among these distances:
  25    1  0.01
  26    7  0.10
  27   62  0.89

ACGTcount: A:0.41, C:0.28, G:0.15, T:0.17


Consensus pattern (25 bp):   
CCCCTGAAGTACAAATGACCAAAAT

Found at i:2745 original size:50 final size:50

Alignment explanation


    Indices: 2665--3072  Score: 699
    Period size: 50  Copynumber: 8.2  Consensus size: 50

       2655 GTAAGGCTTA

                *        *     *               *              
       2665 ACTCATATGGAAATGAGTTTGGCTTGTGGAAAAGCTTGTGTTGATAATTG
          1 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG

                               *     *          *             
       2715 ACTCGTATGGAAACGAGTTTGGCTTATGGAAAAGCCGGTGTTGATAATTG
          1 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG

                               *                              
       2765 ACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCTGTGTTGATAATTG
          1 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG

                                                              
       2815 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG
          1 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG

                               *                *             
       2865 ACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCGGTGTTGATAATTG
          1 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG

                                     *           *            
       2915 ACTCGTATGGAAACGAGTTCGGCTTATGGAAAAGCCTATGTTGATAATTG
          1 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG

                                                              
       2965 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG
          1 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG

                                                     *        
       3015 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTCGATAATTG
          1 ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG

                    
       3065 ACTCGTAT
          1 ACTCGTAT


Statistics
Matches: 341,  Mismatches: 17, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  50  341  1.00

ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31


Consensus pattern (50 bp):   
ACTCGTATGGAAACGAGTTCGGCTTGTGGAAAAGCCTGTGTTGATAATTG

Done.