Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399011.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2290.0, 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: 3295
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.27

Warning! 730 characters in sequence are not A, C, G, or T


Found at i:746 original size:38 final size:38

Alignment explanation


    Indices: 695--768  Score: 148
    Period size: 38  Copynumber: 1.9  Consensus size: 38

        685 AGTTTCTCGA

                                                  
        695 GTTAGACATTTCATTATAATCTATTTTAACAAAAAAAT
          1 GTTAGACATTTCATTATAATCTATTTTAACAAAAAAAT

                                                
        733 GTTAGACATTTCATTATAATCTATTTTAACAAAAAA
          1 GTTAGACATTTCATTATAATCTATTTTAACAAAAAA

        769 TGTACAAAGA


Statistics
Matches: 36,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  38   36  1.00

ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39


Consensus pattern (38 bp):   
GTTAGACATTTCATTATAATCTATTTTAACAAAAAAAT

Found at i:2599 original size:172 final size:172

Alignment explanation


    Indices: 1732--2618  Score: 468
    Period size: 172  Copynumber: 5.2  Consensus size: 172

       1722 NNNNNNNNNA

                                  *     *                *       *          *
       1732 CTTAAAATCAATTTTGAGATTAGAAAACTATTTAAAGTGAGTAATAAGGCTTTCAAAGGT-ATGT
          1 CTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATGAGGCTTTTAAA-GTAATGG

                   *   * *            *  *    **     *   * **      *  **     
       1796 GTGACTATAAATAAAC-TTTCTTTGCTAACGAATGTCTTTTTCTTTACCTTTCTCAAGGTAGACA
         65 GTGACTACAAACAGACTTTTC-TTGCCAATGAATACCTTTTCCTTCATGTTTCTCGAGCAAGACA

                              * * *      *      ********
       1860 TTCAATTATAATCTGTTTTAGCCAAAAATATA-AAANNNNNNNN
        129 TTCAATTATAATCTGTTTGAACAAAAAATGTACAAAAAATTGAG

            **           *              *         *    * *        *   *      
       1903 NNTAAAATCAATTCTGAGATTATAAAACTATTTAAAGTTAGTATTAAGGCTTTTGAAGGAATGGG
          1 CTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATGAGGCTTTTAAAGTAATGGG

                 **   **      *     *               *    *  *  *    **       
       1968 TGACTGTAAATGGACTTTCCTTGCAAATGAAT---TTTT-TTTCAAGTCTCCCGAGGGAGACATT
         66 TGACTACAAACAGACTTTTCTTGCCAATGAATACCTTTTCCTTCATGTTTCTCGAGCAAGACATT

                 *               *                  * *
       2029 CAATTGTAATCTGTTCT-AACGAAAAATGTA-AAAAAATTTAA
        131 CAATTATAATCTGTT-TGAACAAAAAATGTACAAAAAATTGAG

             *           * *                *      **********     *   *      
       2070 CCTAAAATCAATTATAAGATTATAAAACCATTCAAAGTGNNNNNNNNNNCTTTTGAAGGAATGGG
          1 CTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATGAGGCTTTTAAAGTAATGGG

               *  **  **                                     * *  *          
       2135 TGAATATTAATGGACTTTTCTTAG-CAATGAATACCTTCTT-CTTCATGGTCCTTGAG-ATAGAC
         66 TGACTACAAACAGACTTTTCTT-GCCAATGAATACCTT-TTCCTTCATGTTTCTCGAGCA-AGAC

                         * *   *           *     *    * *
       2197 ATTCAATTATAATATATTTTAACAAAAAATGCACAAAGAATTCAA
        128 ATTCAATTATAATCTGTTTGAACAAAAAATGTACAAAAAATTGAG

            *            **         *            **      *     **********    
       2242 ATTAAAATCAATTAAGAGATTATAGAACCATTTAAAGCAAGTAATAAGGCTNNNNNNNNNNTGGG
          1 CTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATGAGGCTTTTAAAGTAATGGG

                  *    *                    **                      *        
       2307 TGACTATAAACGGACTTTTCTTGCCAATGAATGTCTTTTCCTTCATGTTTCTCGAGGAAGACATT
         66 TGACTACAAACAGACTTTTCTTGCCAATGAATACCTTTTCCTTCATGTTTCTCGAGCAAGACATT

                            *                 *    ***
       2372 CAATTATAATCTGTTTTAACAAAAAATGTACAAAGAATTNNN
        131 CAATTATAATCTGTTTGAACAAAAAATGTACAAAAAATTGAG

            *******                    *                                     
       2414 NNNNNNNTCAATTTTGAGATTATAAAATCATTTAAAGTGAGTAATGAGGCTTTTAAAGTAATGGG
          1 CTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATGAGGCTTTTAAAGTAATGGG

               *          *                        *                 *   *   
       2479 TGAGTACAAACAGATTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAGCTAGAGATT
         66 TGACTACAAACAGACTTTTCTTGCCAATGAATACCTTTTCCTTCATGTTTCTCGAGCAAGACATT

            *                                          
       2544 TAATTATAATCTGTTTGAACAAAAAATGTA-AAACAAATTGAG
        131 CAATTATAATCTGTTTGAACAAAAAATGTACAAA-AAATTGAG

                                             
       2586 CTTAAAATCAATTTTGAGATTATAAAACCATTT
          1 CTTAAAATCAATTTTGAGATTATAAAACCATTT

       2619 NNNNNNNNNN


Statistics
Matches: 538,  Mismatches: 163, Indels: 29
        0.74            0.22        0.04

Matches are distributed among these distances:
 167  117  0.22
 168    6  0.01
 170    4  0.01
 171  122  0.23
 172  288  0.54
 173    1  0.00

ACGTcount: A:0.36, C:0.12, G:0.14, T:0.34


Consensus pattern (172 bp):   
CTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATGAGGCTTTTAAAGTAATGGG
TGACTACAAACAGACTTTTCTTGCCAATGAATACCTTTTCCTTCATGTTTCTCGAGCAAGACATT
CAATTATAATCTGTTTGAACAAAAAATGTACAAAAAATTGAG
Done.