Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400690.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3874.0, 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: 2082
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.30

Warning! 307 characters in sequence are not A, C, G, or T


Found at i:500 original size:171 final size:169

Alignment explanation


    Indices: 1--777  Score: 624
    Period size: 171  Copynumber: 4.5  Consensus size: 169

                      *        *  *        **         *                      
          1 TTTTTCTAGTAAATGAATAACTATTTCTTCACCTTTCTCGAGTTAGACATTCAATTATAATCTTC
          1 TTTTT-TAGTCAATGAATAGCTTTTTCTTCATGTTTCT-GAGATAGACATTCAATTATAATCTT-

                         *       *  *               *  *                    *
         66 TTTAACAAAAAATATAAAAAACTTCAACTTAAAATAAATTTTGGGATTATAAAACTATTTAAAGA
         63 TTTAACAAAAAATGTAAAAAAATTTAACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGC

            *                  *     **  *             
        131 AAGTAATAAGGCTTTTGAAGGAATGAATGGCTATAAATG-GAC
        128 GAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGAG-C

                                                   *     *   *           *   
        173 TTTTCTT-G-CAAAAT-AATAGCTTTTTCTTCATGTTTTTTGAGACAGATATTCAATTATACTCT
          1 TTTT-TTAGTC--AATGAATAGCTTTTTCTTCATG-TTTCTGAGATAGACATTCAATTATAATCT

               *   *            *          *    *  *  *       *             *
        235 TTTGAACTAAAAATGTAAAATAATTTAACTTCAAATCAACTACGAGATTACAAAACTATTTAAAA
         62 TTTTAACAAAAAATGTAAAAAAATTTAACTTAAAATAAATTATGAGATTATAAAACTATTTAAAG

                                * *                 *  
        300 CGAGTAATAAGGCTTTTGAAGGCATGGGTGACTATAAATGGGC
        127 CGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGAGC

                                                     *      *                
        343 TTTTTTAGTCAATGAATAGCTTTTTCTTCATGTTTCCTGAGGTAGACACTCAATTATAATCTGTT
          1 TTTTTTAGTCAATGAATAGCTTTTTCTTCATGTTT-CTGAGATAGACATTCAATTATAATCT-TT

                 *            *               *                              
        408 TTAACCAAAAATGTAAAACAATTTAACTTAAAATTAATTATGAGATTATAAAA-TCATTTAAAGC
         64 TTAACAAAAAATGTAAAAAAATTTAACTTAAAATAAATTATGAGATTATAAAACT-ATTTAAAGC

                          **             *  **         
        472 GAGTAATAAGGCTTCGGAAAGAATGGGTGCCTGCAAATGAAG-
        128 GAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATG-AGC

                  *  *    *                 **           *       *      *    
        514 TTTTCTCA-CCAATAAAT-GCCTTTTTCTTCACATTTCTAGAGATTGACATTCTATTATAGTCTA
          1 TTTT-TTAGTCAATGAATAG-CTTTTTCTTCATGTTTCT-GAGATAGACATTCAATTATAATCT-

                 * *  *                 *       * *                 *        
        577 TTTTAGCCAACAATGTAAAAAAATTTAAGTTAAAATGAGTTATGAGATTATAAAACCATTTAAAG
         62 TTTTAACAAAAAATGTAAAAAAATTTAACTTAAAATAAATTATGAGATTATAAAACTATTTAAAG

               *         *                             * 
        642 C-AATAAATAAGGTTTTTG-AAGAAATGGGTGACTATAAATGATC
        127 CGAGT-AATAAGGCTTTTGAAAG-AATGGGTGACTATAAATGAGC

                  *   **     *                  * *   **   *            *    
        685 TTTTTTTGTCCCTGAATGGCTTTTTCTTTC-TGTTTTTCATGGCAGATATTCAATTAT-AGCTTG
          1 TTTTTTAGTCAATGAATAGCTTTTTC-TTCATGTTTCTGA-GATAGACATTCAATTATAATC-T-

                         *                
        748 TTTTAACAAAAAAAGTAAAAAAATTTAACT
         62 TTTTAACAAAAAATGTAAAAAAATTTAACT

        778 NNNNNNNNNN


Statistics
Matches: 479,  Mismatches: 102, Indels: 49
        0.76            0.16        0.08

Matches are distributed among these distances:
 169    8  0.02
 170  141  0.29
 171  310  0.65
 172   19  0.04
 173    1  0.00

ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37


Consensus pattern (169 bp):   
TTTTTTAGTCAATGAATAGCTTTTTCTTCATGTTTCTGAGATAGACATTCAATTATAATCTTTTT
AACAAAAAATGTAAAAAAATTTAACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGCGAG
TAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGAGC
Done.