Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01007384.1 Hibiscus syriacus cultivar Beakdansim tig00019856_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: 34597
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:14098 original size:17 final size:17

Alignment explanation


    Indices: 14076--14113  Score: 58
    Period size: 17  Copynumber: 2.2  Consensus size: 17

      14066 GGTCTGACCC

                    *        
      14076 GACCCGACTCGACCATT
          1 GACCCGACCCGACCATT

                          *  
      14093 GACCCGACCCGACCGTT
          1 GACCCGACCCGACCATT

                
      14110 GACC
          1 GACC

      14114 GTTGACCGTT


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

Matches are distributed among these distances:
  17   19  1.00

ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13


Consensus pattern (17 bp):   
GACCCGACCCGACCATT

Found at i:14113 original size:7 final size:7

Alignment explanation


    Indices: 14103--14147  Score: 74
    Period size: 7  Copynumber: 6.6  Consensus size: 7

      14093 GACCCGACCC

                   
      14103 GACCGTT
          1 GACCGTT

                   
      14110 GACCGTT
          1 GACCGTT

                   
      14117 GACCGTT
          1 GACCGTT

              *    
      14124 GAACGTT
          1 GACCGTT

                   
      14131 GACCG-T
          1 GACCGTT

                   
      14137 GACCGTT
          1 GACCGTT

                
      14144 GACC
          1 GACC

      14148 TCCTTTGACC


Statistics
Matches: 35,  Mismatches: 2, Indels: 2
        0.90            0.05        0.05

Matches are distributed among these distances:
   6    6  0.17
   7   29  0.83

ACGTcount: A:0.18, C:0.29, G:0.29, T:0.24


Consensus pattern (7 bp):   
GACCGTT

Found at i:21385 original size:19 final size:19

Alignment explanation


    Indices: 21356--21408  Score: 79
    Period size: 19  Copynumber: 2.8  Consensus size: 19

      21346 CGACAGGTTC

                *            * 
      21356 AAACTGGTCTGACCGATTT
          1 AAACCGGTCTGACCGATCT

               *               
      21375 AAAGCGGTCTGACCGATCT
          1 AAACCGGTCTGACCGATCT

                           
      21394 AAACCGGTCTGACCG
          1 AAACCGGTCTGACCG

      21409 GTCTGACCCG


Statistics
Matches: 30,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  19   30  1.00

ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23


Consensus pattern (19 bp):   
AAACCGGTCTGACCGATCT

Found at i:27680 original size:54 final size:54

Alignment explanation


    Indices: 27555--27680  Score: 130
    Period size: 54  Copynumber: 2.3  Consensus size: 54

      27545 ACGTGCTTTG

                 *       *   **             *                     
      27555 CACACCTAGTGCCAAAATGGTTATTCATCCTCGTAGGTTGAATTTCGTGAAATA
          1 CACACTTAGTGCCGAAACAGTTATTCATCCTCCTAGGTTGAATTTCGTGAAATA

                      * *                              *           *
      27609 CACACTTAGTACTGAAACAGTTATTCAT-CTACCTAGGTTG-AGTTCTGTGAAATG
          1 CACACTTAGTGCCGAAACAGTTATTCATCCT-CCTAGGTTGAATTTC-GTGAAATA

            *                 
      27663 TACACTTAGTGCCGAAAC
          1 CACACTTAGTGCCGAAAC

      27681 GACTATTCAT


Statistics
Matches: 58,  Mismatches: 12, Indels: 4
        0.78            0.16        0.05

Matches are distributed among these distances:
  53    6  0.10
  54   52  0.90

ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31


Consensus pattern (54 bp):   
CACACTTAGTGCCGAAACAGTTATTCATCCTCCTAGGTTGAATTTCGTGAAATA
Done.