Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399137.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2411.0, 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, 712

Length: 1188
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.35

Warning! 40 characters in sequence are not A, C, G, or T


Found at i:796 original size:172 final size:170

Alignment explanation


    Indices: 1--1186  Score: 742
    Period size: 171  Copynumber: 6.9  Consensus size: 170

                           *  *    *               *                *    *  *
          1 TTAACTAAAAATGTATAACAATTCAACTTAAAATCAATTATGAGATTATAAAA-CTTTTTACAGC
          1 TTAAC-AAAAATGTAAAAAAATTTAACTTAAAATCAATTTTGAGATTATAAAATC-ATTTAAAGT

                  **   *    *       *   *         *           **         *   
         65 GAGT-ACCAAGTTTTTTAAGGAATAGGTTACTATAAATGGACTTTTCTTGTGAATGAATA-TTCT
         64 GAGTAATAAAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATACCT-T

                           **********       *     * *  
        128 TTTCTTCATGTTTCTNNNNNNNNNNATTCAATTATAATCTGTT
        128 TTTCTTCATGTTTCTCAAGATAGACATTCAATGATAATATATT

                    *   *          *  *      *                               
        171 TTAACCAAGAATATAAAAAAATTCAATTTAAAAACAATTTT-AGGATTATAAAATCATTTAAAGT
          1 TTAA-CAAAAATGTAAAAAAATTTAACTTAAAATCAATTTTGA-GATTATAAAATCATTTAAAGT

                     * *      *     *   *         *  *        *     *        
        235 GAGTAATAAGGTTTTTGAGGGAATAGGTAACTATAAATGGAATTTAT-TTTCCAATAAATACCTT
         64 GAGTAATAAAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTT-TCTTGCCAATGAATACCTT

                            *    *   *       *       *  
        299 TTTCTTCATGTTTC-CCAGAACAGATATTCAATTATAATATGTT
        128 TTTCTTCATGTTTCTCAAG-ATAGACATTCAATGATAATATATT

            *          *  *            *       *   *             *  *********
        342 CTAACCAAAAAGGTCAAAAAATTTAACCTAAAATCTATTATGAGATTATAAAACCANNNNNNNNN
          1 TTAA-CAAAAATGTAAAAAAATTTAACTTAAAATCAATTTTGAGATTATAAAATCATTTAAAGTG

            *    *  *              *     *       *                      *    
        407 NGTAACAAGGCTTTTGAAGGAATAGGTGAATATAAATGGACTTTTCTTGCCAATGAA-AGACTTT
         65 AGTAATAAAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATA-CCTTT

                           *    **********  *     *    
        471 TTCTTCATGTTTCTTGAAG-NNNNNNNNNNATTATAATCTATT
        129 TTCTTCATGTTTC-TCAAGATAGACATTCAATGATAATATATT

                 *             *           *              *                  
        513 TTAATAAAAAATG-ACAAAGAATTTGAA-TTTAAATCAATTTTGAGGTTATAAAATCATTTAAAG
          1 TTAA-CAAAAATGTA-AAAAAATTT-AACTTAAAATCAATTTTGAGATTATAAAATCATTTAAAG

             * *      *  *   *        *       *    *          *  * *         
        576 TCAATAATAAGGCCTTTAAAGGAATGAGTGACTACAAATGGACTTTTCTTACCGACGAATACCTT
         63 TGAGTAATAAAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATACCTT

                        *      *                    * *
        641 TTTCTTCATGTTGCTCAAGGTAGACATTCAATGATAATATGTG
        128 TTTCTTCATGTTTCTCAAGATAGACATTCAATGATAATATATT

                             *                 *          *                  
        684 TTAACAAAAAATGTAAATAAATTTGAACTTAAAATTAATTTTGAGAATATAAAATCATTTAAAGT
          1 TTAAC-AAAAATGTAAAAAAATTT-AACTTAAAATCAATTTTGAGATTATAAAATCATTTAAAGT

               *                *                             **       *     
        749 GAGCAATAAAGCTTTTGAAGTAATGGGTGACTATAAATAGACTTTTCTTGTAAATGAATGCCTTT
         64 GAGTAATAAAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATACCTTT

                 *      *                               
        814 TTCTTGATAG-TCCTCAAGATAGACATTCAATTG-TAATATATT
        129 TTCTTCAT-GTTTCTCAAGATAGACATTCAA-TGATAATATATT

                        *               *          * *      *    * *   **  * 
        856 TTAATCAAAAATATAAAAAAATTTAACTGAAAATCAATTATAAGATTAGAAAACCTTTTCCAGCG
          1 TTAA-CAAAAATGTAAAAAAATTTAACTTAAAATCAATTTTGAGATTATAAAATCATTTAAAGTG

                    *               *      *           *                     
        921 AGTAATAAGGCTTTTGAAGGAATGTGTGACTCTAAATAGACTTCTCTTGCCAATGAATATCC-TT
         65 AGTAATAAAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATA-CCTTT

                              *       *    *     * *  
        985 TTCTTCATGTTTCTCAAGGTAGACATACAATTATAATCTTTT
        129 TTCTTCATGTTTCTCAAGATAGACATTCAATGATAATATATT

                                                         **********          
       1027 TTAACTAAAAATGTAAAAAAATTTAACTTAAAATCAATTTTGAGANNNNNNNNNNATTTAAAGTG
          1 TTAAC-AAAAATGTAAAAAAATTTAACTTAAAATCAATTTTGAGATTATAAAATCATTTAAAGTG

                              *      *           *          *          *     
       1092 AGTAATAAAGCTTTTGAAAGAATGGTTGACTATAAATGGACTTTTCTTCCCAATGAATATCTTTT
         65 AGTAATAAAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATACCTTTT

                   *   *          *       
       1157 TCTTCATATTTTTCAAGATAGATATTCAAT
        130 TCTTCATGTTTCTCAAGATAGACATTCAAT

       1187 TA


Statistics
Matches: 772,  Mismatches: 217, Indels: 53
        0.74            0.21        0.05

Matches are distributed among these distances:
 169    1  0.00
 170   62  0.08
 171  560  0.73
 172  143  0.19
 173    6  0.01

ACGTcount: A:0.38, C:0.11, G:0.12, T:0.35


Consensus pattern (170 bp):   
TTAACAAAAATGTAAAAAAATTTAACTTAAAATCAATTTTGAGATTATAAAATCATTTAAAGTGA
GTAATAAAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATACCTTTTT
CTTCATGTTTCTCAAGATAGACATTCAATGATAATATATT
Done.