Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01005928.1 Hibiscus syriacus cultivar Beakdansim tig00013918_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: 251293
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


File 2 of 2

Found at i:248987 original size:16 final size:16

Alignment explanation


    Indices: 248966--248998  Score: 66
    Period size: 16  Copynumber: 2.1  Consensus size: 16

     248956 AAAAAAATTT

                            
     248966 TGTTCGTTTATGTTCG
          1 TGTTCGTTTATGTTCG

                            
     248982 TGTTCGTTTATGTTCG
          1 TGTTCGTTTATGTTCG

             
     248998 T
          1 T

     248999 TAATTTATTA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58


Consensus pattern (16 bp):   
TGTTCGTTTATGTTCG

Found at i:249461 original size:14 final size:14

Alignment explanation


    Indices: 249442--249479  Score: 51
    Period size: 14  Copynumber: 2.7  Consensus size: 14

     249432 CTATACTCTG

                           
     249442 CCCTTAATT-TAGAA
          1 CCCTTAATTATA-AA

                          
     249456 CCCTTAATTATAAA
          1 CCCTTAATTATAAA

                *     
     249470 CCCTAAATTA
          1 CCCTTAATTA

     249480 GAGTTTATGA


Statistics
Matches: 22,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  14   20  0.91
  15    2  0.09

ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34


Consensus pattern (14 bp):   
CCCTTAATTATAAA

Found at i:250835 original size:185 final size:186

Alignment explanation


    Indices: 250523--250894  Score: 638
    Period size: 185  Copynumber: 2.0  Consensus size: 186

     250513 TGATCAAATC

                                                                             
     250523 AGGGGATAAAGGCTACCATGCATATGAAGTGATAGCGATGGATGATGGCTTACAAATACCAGAAG
          1 AGGGGATAAAGGCTACCATGCATATGAAGTGATAGCGATGGATGATGGCTTACAAATACCAGAAG

                                                                             
     250588 CTTCTAATTCTTTCAGGAACATGGAAACAACTCTAGCTACATCTTCAACTGATTGGTGAGTCCCT
         66 CTTCTAATTCTTTCAGGAACATGGAAACAACTCTAGCTACATCTTCAACTGATTGGTGAGTCCCT

                                                                    
     250653 TCATGG-ATTTTTTTTATTTCGAGCTGACCAAATAGTCCAGAAAATGGTGACCAAG
        131 TCATGGTATTTTTTTTATTTCGAGCTGACCAAATAGTCCAGAAAATGGTGACCAAG

                   * *                           *                *         *
     250708 AGGGGATGAGGGCTACCATGCATATGAAGTGATAGCGGTGGATGATGGCTTACAGATACCAGAAT
          1 AGGGGATAAAGGCTACCATGCATATGAAGTGATAGCGATGGATGATGGCTTACAAATACCAGAAG

                 *             *       *      *                              
     250773 CTTCTCATTCTTTCAGGAATATGGAAATAACTCTCGCTACATCTTCAACTGATTGGTGAGTCCCT
         66 CTTCTAATTCTTTCAGGAACATGGAAACAACTCTAGCTACATCTTCAACTGATTGGTGAGTCCCT

              *    *                                                
     250838 TCCTGGTTTTTTTTTTATTTCGAGCTGACCAAATAGTCCAGAAAATGGTGACCAAG
        131 TCATGGTATTTTTTTTATTTCGAGCTGACCAAATAGTCCAGAAAATGGTGACCAAG

             
     250894 A
          1 A

     250895 TTCTTCTTTG


Statistics
Matches: 175,  Mismatches: 11, Indels: 1
        0.94            0.06        0.01

Matches are distributed among these distances:
 185  126  0.72
 186   49  0.28

ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29


Consensus pattern (186 bp):   
AGGGGATAAAGGCTACCATGCATATGAAGTGATAGCGATGGATGATGGCTTACAAATACCAGAAG
CTTCTAATTCTTTCAGGAACATGGAAACAACTCTAGCTACATCTTCAACTGATTGGTGAGTCCCT
TCATGGTATTTTTTTTATTTCGAGCTGACCAAATAGTCCAGAAAATGGTGACCAAG

Done.