Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402285.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5368.0, 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, 908

Length: 1514
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.23

Warning! 512 characters in sequence are not A, C, G, or T


Found at i:572 original size:170 final size:170

Alignment explanation


    Indices: 143--894  Score: 460
    Period size: 171  Copynumber: 4.4  Consensus size: 170

        133 GTACATATTT

                                                      *       *      *       
        143 AATTATAATTTGTTTTAATCAAAAATGTAAAAAAAATTCAACCTAAAATCTATTATGGGATTATA
          1 AATTATAATTTGTTTTAA-CAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATA

                         *     *    **        *             *    *           
        208 AAACCATTTAAAGTAAGA-GATAAAACTTTCGAAGGCATAGGTGACTATAAATGGACTTTTTTTT
         64 AAACCATTTAAAGCAA-ACAATAAGGCTTTCGAAAGCATAGGTGACTACAAATAGACTTTTTTTT

                                  *         *          
        272 CTAATGAATAGCTTTTTATTCATGTTTCTCAAGGTAGACATTC
        128 CTAATGAATAGCTTTTTATTCACGTTTCTCAAAGTAGACATTC

                                       * *    *                        ******
        315 AATTATAATTTGTTTTAACTAAAAATGCATAAAATTTCAACTTAAAATCAATTATGAGANNNNNN
          1 AATTATAATTTGTTTTAAC-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA

            ****          **                   *                   *         
        380 NNNNATTTAAAGCATGCAATAAGGCTTTC-AACAGTATAGGTGACTACAAATAGATTTTTTTTTC
         65 AACCATTTAAAGCAAACAATAAGGCTTTCGAA-AGCATAGGTGACTACAAATAGACTTTTTTTTC

                             *                   *     
        444 -AATGAAT-GACTTTTTCTTCACGTTTCTCAAAGTAGGCATTC
        129 TAATGAATAG-CTTTTTATTCACGTTTCTCAAAGTAGACATTC

                     *                *            *            *            
        485 AATTATAATATGTTTTAACAAAAAATATAAAAAACATTCTACTTAAAATCAAAT-TGAGATTATA
          1 AATTATAATTTGTTTTAAC-AAAAATGTAAAAAA-ATTCAACTTAAAATCAATTATGAGATTATA

                *      *                 *   *    *        *    *        * * 
        549 AAACTATTTAATGCAAACAATAAGGCTTTTGAAGGCATGGGTGACTATAAATTGACTTTTTCTGC
         64 AAACCATTTAAAGCAAACAATAAGGCTTTCGAAAGCATAGGTGACTACAAATAGACTTTTTTTTC

            *      * *      *     *    *   *  ********
        614 CAATGAAAATCTTTTTCTTCACATTTCCCAAGGTNNNNNNNN
        129 TAATGAATAGCTTTTTATTCACGTTTCTCAAAGTAGACATTC

            **       * *              *            *        *         *      
        656 NNTTATAATCTATTTTAACCAAAAATATAAAAAAATTCATCTTAAAATTAATTATGA-TTATATA
          1 AATTATAATTTGTTTTAA-CAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAT-TATA

                         ** * *    *  *      *               *    *   *   *  
        720 AAACCATTTAAAGTGAGCGATAATGCCTTCGAATGCAT-GAGTGA-TGATAAATGGACATTTCTT
         64 AAACCATTTAAAGCAAACAATAAGGCTTTCGAAAGCATAG-GTGACT-ACAAATAGACTTTTTTT

            * *  * *  *      **    **   *     **   *     
        783 ACCAAAGGATGGCTTTTGCTTCAAATTTTTCAAAACA-AAAGTTC
        127 TCTAATGAATAGCTTTTTATTCACGTTTCTCAAAGTAGACA-TTC

                     * *                                           *         
        827 AATTATAATATATTTTAATCAAAAATGTAAAAAAGATTCAACTTAAAATCAATTAGGAGATTATA
          1 AATTATAATTTGTTTTAA-CAAAAATGTAAAAAA-ATTCAACTTAAAATCAATTATGAGATTATA

               
        892 AAA
         64 AAA

        895 ATATCTAAAG


Statistics
Matches: 438,  Mismatches: 126, Indels: 32
        0.73            0.21        0.05

Matches are distributed among these distances:
 169    1  0.00
 170  134  0.31
 171  249  0.57
 172   53  0.12
 173    1  0.00

ACGTcount: A:0.40, C:0.12, G:0.11, T:0.35


Consensus pattern (170 bp):   
AATTATAATTTGTTTTAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
ACCATTTAAAGCAAACAATAAGGCTTTCGAAAGCATAGGTGACTACAAATAGACTTTTTTTTCTA
ATGAATAGCTTTTTATTCACGTTTCTCAAAGTAGACATTC
Done.