Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398419.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1718.0, 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: 1801
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.30

Warning! 323 characters in sequence are not A, C, G, or T


Found at i:981 original size:171 final size:168

Alignment explanation


    Indices: 22--1284  Score: 650
    Period size: 171  Copynumber: 7.4  Consensus size: 168

         12 TTGAGAAACA

                                 *           *     * *     *            **   
         22 TGAAGAAAAAGGCATTCATTGACAAGAAAAGTCTATTTAAAATCACATATTCCTTCAAAAATCTT
          1 TGAAGAAAAA-GCATTCATTGGCAAGAAAAGTCCATTTATAGTCAC-CATTCCTTCAAAAGCCTT

                  **        *            *                 *    *         ***
         87 ATTACTCCCTTTAAATAGTTTTATAATCTTATAATTGATTTTAAGTTGAATTGTTTTACATTNNN
         64 ATTACTAGC-TTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTT

            *********              *  *             **
        152 NNNNNNNNTAGACTATAATTGAAGGTCTACCTT-GAGAAACA
        128 AGTTAAAACAGACTATAATTGAATGTTTA-CTTCGAGAAATG

                            *                *          *               *    
        193 TGAAGAAAAAAGCATTTATTGGCAAGAAAAGT-AATTTATAGTCTCTCATTCCTTCAAAAACCTT
          1 TGAAG-AAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCAC-CATTCCTTCAAAAGCCTT

                   **********                               *    * *         
        257 ATTACTNNNNNNNNNNAGTTTTATAATCAT-ATAATTGATTTTAAGTTGAATTGTATTACATTTT
         64 ATTACT-AGCTTAAATGGTTTTATAATC-TCATAATTGATTTTAAGTTAAATTTTTTTACA-TTT

                 *    *               * *             * 
        321 TTA-TCAAAATAGACTATAATTGAATATCTACATT-GAGAAACG
        126 TTAGTTAAAACAGACTATAATTGAATGTTTAC-TTCGAGAAATG

               *                 *           *     * *     *    *       ***  
        363 TGAGGAAAAAGTCATTCATTGACAAGAAAAGTCTATTTAAAATCACATATTCTTTCAAAAATTTT
          1 TGAAGAAAAAG-CATTCATTGGCAAGAAAAGTCCATTTATAGTCAC-CATTCCTTCAAAAGCCTT

                   *         *            **********    *   *                
        428 ACTT-CTCGCTTTAAATAGTTTTATAATCTNNNNNNNNNNTTTACGTTGAA-TTTTTTACATTTT
         64 A-TTACTAGC-TTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTT

               **                        *            
        491 TA-CAAAAACAGACTATAATTGAATGTTTTCTTCGAGAAATG
        127 TAGTTAAAACAGACTATAATTGAATGTTTACTTCGAGAAATG

            *                   *           *            *                   
        532 AGAAGAAAAAAGCATTCATTCGCAAGAAAAGTTCATTTATAGTCTCCCATTCCTTCAAAAGCCTT
          1 TGAAG-AAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTC-ACCATTCCTTCAAAAGCCTT

                  *           *                  ***********    *            
        597 ATTACTTGCGTTAAATGGATTTATAATCTCATAATTGNNNNNNNNNNGAATTGTTTTACATTTTT
         64 ATTACTAGC-TTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTT

            *    *    *                               
        662 GGTTACAACACACTATAATTGAATGTTTA-TCTCGAGAAATG
        128 AGTTAAAACAGACTATAATTGAATGTTTACT-TCGAGAAATG

                          *      *            *                * *           
        703 TGAAGAAAAAGGCACTCATTGACAA-AAACAGTCTATTTATAGTCACCAATGCTTTCAAAAGCCT
          1 TGAAGAAAAA-GCATTCATTGGCAAGAAA-AGTCCATTTATAGTCACC-ATTCCTTCAAAAGCCT

                   *              ********** *               * *             
        767 TATTACGCA-CTTTAAATGGTTNNNNNNNNNNAAAATTGATTTTAAGTTCATTTTTTTTACATTT
         63 TATTAC-TAGC-TTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTT

                 *        *              *    **       
        831 TTAGTCAAAACAGATTATAATTGAATGTTAACTTTTAGAAATG
        126 TTAGTTAAAACAGACTATAATTGAATGTTTACTTCGAGAAATG

                                                  *            *             
        874 TGAAGAAAAGAGCATTCATTGGCAAGAAAAGTCCATTTGTAGTCACCTATTTCTTCAAAAGCCTT
          1 TGAAGAAAA-AGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACC-ATTCCTTCAAAAGCCTT

                                               *                             
        939 ATTACTAGCTTGAAATGGTTTTATAATCTCATAATCGATTTTAAGTTAAATTTTTTTACAATTTT
         64 ATTACTAGCTT-AAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTAC-ATTTT

            *        *            *      *      *      *
       1004 CA-TTAAAAGAGACT-TAATTGCATGCGTGT-C-TCAAGAAATA
        127 TAGTTAAAACAGACTATAATTGAAT--GTTTACTTCGAGAAATG

              *             *     *       *    * *      *                    
       1044 TGTAGAAAAAGCCATTGATTGGGAAGAAAAATCCACTAATAGTAAACCATTCCTTCAAAAGCCTT
          1 TGAAGAAAAAG-CATTCATTGGCAAGAAAAGTCCATTTATAGT-CACCATTCCTTCAAAAGCCTT

                  *     *********               *                 *   *      
       1109 ATTACTCGCTTNNNNNNNNNNTATAATCTCATAATTAATTTTAAGTTAAATTTTCTTATATTTTT
         64 ATTACTAGCTT-AAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTT

            *                   *     **            * 
       1174 GGTTAAAACAGACTATAATTCAATGTGCACCTT-GAGAAACG
        128 AGTTAAAACAGACTATAATTGAATGTTTA-CTTCGAGAAATG

                      *        * *  *       *                                
       1215 TGAAGAAAAATCATTCATTCGTAAAAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTA
          1 TGAAGAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCA-CCATTCCTTCAAAAGCCTTA

                 
       1280 TTACT
         65 TTACT

       1285 CGCTNNNNNN


Statistics
Matches: 820,  Mismatches: 235, Indels: 75
        0.73            0.21        0.07

Matches are distributed among these distances:
 168    4  0.00
 169  122  0.15
 170  331  0.40
 171  342  0.42
 172   21  0.03

ACGTcount: A:0.35, C:0.13, G:0.11, T:0.35


Consensus pattern (168 bp):   
TGAAGAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCATTCCTTCAAAAGCCTTAT
TACTAGCTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTAGT
TAAAACAGACTATAATTGAATGTTTACTTCGAGAAATG
Done.