Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017763.1 Corchorus olitorius cultivar O-4 contig17796, 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: 5986
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34


Found at i:4808 original size:11 final size:11

Alignment explanation


    Indices: 4788--4822  Score: 61
    Period size: 11  Copynumber: 3.2  Consensus size: 11

       4778 TTGACAGCGC

                       
       4788 AACAAAAACAA
          1 AACAAAAACAA

               *       
       4799 AACGAAAACAA
          1 AACAAAAACAA

                       
       4810 AACAAAAACAA
          1 AACAAAAACAA

              
       4821 AA
          1 AA

       4823 AACAGAAAAA


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  11   22  1.00

ACGTcount: A:0.80, C:0.17, G:0.03, T:0.00


Consensus pattern (11 bp):   
AACAAAAACAA

Found at i:5849 original size:120 final size:120

Alignment explanation


    Indices: 5636--5875  Score: 435
    Period size: 120  Copynumber: 2.0  Consensus size: 120

       5626 TAGACTCAAT

                                                                             
       5636 CTGGCGCATGAGCACGGTGAACCTGACCCTGATCACAGCCAGGGGTGTGCAAATTGCGGAGTGAT
          1 CTGGCGCATGAGCACGGTGAACCTGACCCTGATCACAGCCAGGGGTGTGCAAATTGCGGAGTGAT

                                *                **      *         
       5701 GGTAACTTGTACTCCGAGGGTTAAGTCTTGGATGACCGGTAATTGGGTTAAAGAC
         66 GGTAACTTGTACTCCGAGGGCTAAGTCTTGGATGACCAATAATTGAGTTAAAGAC

                                      *                                      
       5756 CTGGCGCATGAGCACGGTGAACCTGATCCTGATCACAGCCAGGGGTGTGCAAATTGCGGAGTGAT
          1 CTGGCGCATGAGCACGGTGAACCTGACCCTGATCACAGCCAGGGGTGTGCAAATTGCGGAGTGAT

                                                                   
       5821 GGTAACTTGTACTCCGAGGGCTAAGTCTTGGATGACCAATAATTGAGTTAAAGAC
         66 GGTAACTTGTACTCCGAGGGCTAAGTCTTGGATGACCAATAATTGAGTTAAAGAC

       5876 TTGACGAGTT


Statistics
Matches: 115,  Mismatches: 5, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
 120  115  1.00

ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23


Consensus pattern (120 bp):   
CTGGCGCATGAGCACGGTGAACCTGACCCTGATCACAGCCAGGGGTGTGCAAATTGCGGAGTGAT
GGTAACTTGTACTCCGAGGGCTAAGTCTTGGATGACCAATAATTGAGTTAAAGAC
Done.