Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01001524.1 Hibiscus syriacus cultivar Beakdansim tig00002990_pilon, 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: 185638
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33


File 2 of 2

Found at i:181750 original size:183 final size:184

Alignment explanation


    Indices: 181471--181963  Score: 850
    Period size: 183  Copynumber: 2.7  Consensus size: 184

     181461 GCAATGCTAT

                           *                                 *       *       
     181471 CGGTATAAATATACCTGTTTTATGAGCGAATAGGTCTACAACCTATATCAACACTTTTTAATATT
          1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT

              *                                                *    *        
     181536 GTCTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTCAAAACGTGTCGAC
         66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC

                                                                   
     181600 AGTTACACATCGGAACCCAGAA-TTATAATGTAATAGATAATTTTGTAATATAAC
        131 AGTTACACATCGGAACCCA-AATTTATAATGTAATAGATAATTTTGTAATATAAC

                                                                             
     181654 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
          1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT

                        *           *                                        
     181719 GTGTCGGTACTTAATGTCCAGATTTGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGAC
         66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC

             *  *                                                 
     181783 ATTTTCACATCGGAACCCAAATTTATAATGTAATAGATAATTTTGTAATATAAC
        131 AGTTACACATCGGAACCCAAATTTATAATGTAATAGATAATTTTGTAATATAAC

                                                               *             
     181837 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGATACTTTCTAATATT
          1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT

                                                                           
     181902 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTG-AAAAAAGTGTCG
         66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCG

     181964 GTAATTTTAA


Statistics
Matches: 294,  Mismatches: 13, Indels: 6
        0.94            0.04        0.02

Matches are distributed among these distances:
 182    2  0.01
 183  288  0.98
 184    4  0.01

ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33


Consensus pattern (184 bp):   
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCGAC
AGTTACACATCGGAACCCAAATTTATAATGTAATAGATAATTTTGTAATATAAC

Found at i:185213 original size:23 final size:23

Alignment explanation


    Indices: 185182--185254  Score: 101
    Period size: 23  Copynumber: 3.2  Consensus size: 23

     185172 ATAGGTAAAA

                *                  
     185182 ATATGATGTAATAGGTAGCGATT
          1 ATATAATGTAATAGGTAGCGATT

                             *  *  
     185205 ATATAATGTAATAGGTATCGTTT
          1 ATATAATGTAATAGGTAGCGATT

                              * *  
     185228 ATATAATGTAATAGGTAGTGGTT
          1 ATATAATGTAATAGGTAGCGATT

                
     185251 ATAT
          1 ATAT

     185255 TGTAAAGTAT


Statistics
Matches: 44,  Mismatches: 6, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  23   44  1.00

ACGTcount: A:0.36, C:0.03, G:0.22, T:0.40


Consensus pattern (23 bp):   
ATATAATGTAATAGGTAGCGATT

Done.