Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402660.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5728.0, 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, 933

Length: 1555
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.38

Warning! 30 characters in sequence are not A, C, G, or T


Found at i:498 original size:170 final size:171

Alignment explanation


    Indices: 1--1555  Score: 1104
    Period size: 171  Copynumber: 9.1  Consensus size: 171

                    *                  *  *          *        **  *        * 
          1 TGTTTTTATAATCTCATAATTGATTTTCAGTTGAATTTTTTCACATTTTTGGTTGAAACAGATAA
          1 TGTTTTTACAATCTCATAATTGATTTTAAGCTGAATTTTTTTACATTTTTTATTAAAACAGATTA

                 *      ** *   *     * *               *    *       *  *     
         66 TAATTGAATGTCCGCGTCAGGAAACGTAAAGAAAAAGATATCCGTTGGCAAGAAAAGTCTATTTA
         66 TAATTTAATGTCTACCTCAAGAAACATGAAGAAAAAGATATCCATTGGTAAGAAAAATCCATTTA

              *              *        *             ** 
        131 TAATCAGC-CATGCCTTTGAAAGCCTCATTACAT-GCTTTGGA
        131 TAGTCA-CTCATGCCTTCGAAAGCCTTATTAC-TCGCTTTAAA

                                  *   *    *            *                    
        172 TAG-TTTTACAATCTCATAATTAATTATAAGTTGAATTTTTTTATATTTTTTATTAAAACAGATT
          1 T-GTTTTTACAATCTCATAATTGATTTTAAGCTGAATTTTTTTACATTTTTTATTAAAACAGATT

                  *                                            *       *     
        236 ATAATTCAGAT-T-T-CCTCAAGAAACATGAAG-AAAAGATATCCATTGGCCAA-AAAAGTCCAT
         65 ATAATTTA-ATGTCTACCTCAAGAAACATGAAGAAAAAGATATCCATTGG-TAAGAAAAATCCAT

                 * ** *                                 
        296 TTATAATTGCCCATGCCTTCGAAAGCCTTATTACTCGCTTTAAA
        128 TTATAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAA

                    *      *    *                              *             
        340 TGTTTTTAAAATCTCCTAATAGATTTTAAGCTGAATTTTTTTACATTTTTTGTTCAAAA-A-ATT
          1 TGTTTTTACAATCTCATAATTGATTTTAAGCTGAATTTTTTTACATTTTTTATT-AAAACAGATT

                   *           *    *                  *      *           *  
        403 ATAATTTCATGTCTACCTCTAGAATCATGAAGAAAAAGATATCTATTGGTGAGAAAAATCCACTT
         65 ATAATTTAATGTCTACCTCAAGAAACATGAAGAAAAAGATATCCATTGGTAAGAAAAATCCATTT

                       **          *         *        
        468 ATAGTCACTCACACCTTCGAAAGTCTTATTACTAGCTTTAAA
        130 ATAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAA

             **********                     *           **                *  
        510 TNNNNNNNNNNTCTCATAATTGATTTTAAG-TTAA-TTTTTTATTGTATTTTTATTAAAACATAT
          1 TGTTTTTACAATCTCATAATTGATTTTAAGCTGAATTTTTTTA-CAT-TTTTTATTAAAACAGAT

                   *                    *      *********       **           *
        573 TATAA-TAATATGTCTACCTCAAGAAACGTGAAGNNNNNNNNNNT-CATTGACAA-AAAAAGTCT
         64 TATAATTTA-ATGTCTACCTCAAGAAACATGAAG-AAAAAGATATCCATTGGTAAGAAAAA-TCC

                          *         *                    * 
        635 ATTT-TAAGTCACTTATGCCTTCGGAAGCCTTATTACTCGCTTTATA
        126 ATTTAT-AGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAA

                         *               **           *                   * *
        681 -G-TTTTACAATCACATAATTGATTTTAAATTGAAAGTTTTTATAC-TTTTTTATTAAAACAAAC
          1 TGTTTTTACAATCTCATAATTGATTTTAAGCTG-AA-TTTTTTTACATTTTTTATTAAAACAGAT

              *    *                                   *      **       *     
        743 TAAAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGATATTCATTGCCCAA-AAAAGTCCAT
         64 TATAATTTAATGTCTACCTCAAGAAACATGAAGAAAAAGATATCCATTG-GTAAGAAAAATCCAT

                 *                              *  *    
        807 TTATAATCACTCATGCCTTCGAAAGCCTTATTACTCTCTGTAAA
        128 TTATAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAA

             *      *     *     *                    *        **         *   
        851 TATTTTTAAAATCTGATAATAGATTTTAAGCTGAATTTTTTAACATTTTTGGTTCAAAA-AAATT
          1 TGTTTTTACAATCTCATAATTGATTTTAAGCTGAATTTTTTTACATTTTTTATT-AAAACAGATT

                        * *    **       *                                  * 
        915 ATAATTTAATGTTTGCCTCTGGAAACATAAAGAAAAAGATATCCATTGGT-AGAAAAAATCCACT
         65 ATAATTTAATGTCTACCTCAAGAAACATGAAGAAAAAGATATCCATTGGTAAG-AAAAATCCATT

                          *     *                       
        979 TATAGTCACAT-ATACCTTCAAAAGCCTTATTACTCGCTTTAAA
        129 TATAGTCAC-TCATGCCTTCGAAAGCCTTATTACTCGCTTTAAA

              *     *   *  *                *  *       **         *    * *   
       1022 TGGTTTTATAATTTCGTAATTGATTTTAAG-TTATCTTTTTTTTTA-TTTTTATAAAAATATATT
          1 TGTTTTTACAATCTCATAATTGATTTTAAGCTGA-ATTTTTTTACATTTTTTATTAAAACAGATT

                  *   *        *      *                              *  *    
       1085 ATAATTGAATATCTACCTCGAGAAACCTGAAGAAAAAGATATCCATTGGTAAGAAAAGTCTATTT
         65 ATAATTTAATGTCTACCTCAAGAAACATGAAGAAAAAGATATCCATTGGTAAGAAAAATCCATTT

                    *    **********                   
       1150 ATAGTCACCCATGNNNNNNNNNNCCTTATTACTC-CTTTAAA
        130 ATAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAA

              *      *                                       *    *   *      
       1191 TGGTTTTACCATCTCATAATTGATTTTAAGCTGAATTTTTTTACA-TTTGTATTGAAATAGATTA
          1 TGTTTTTACAATCTCATAATTGATTTTAAGCTGAATTTTTTTACATTTTTTATTAAAACAGATTA

                 *     *      *                    *       * *        *  *   
       1255 TAATTGAATGTTTACCTCGAGAAA-AGTGAAG-AAAAGACATCCATTTGCAAG-AAAAGCTAATT
         66 TAATTTAATGTCTACCTCAAGAAACA-TGAAGAAAAAGATATCCATTGGTAAGAAAAATC-CATT

                     *     *      *           * *      
       1317 TATAGTCACCCATGCTTTCGAAGGCCTTATTACTTGATTTAAA
        129 TATAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAA

             *     **     *    **            * *       *                     
       1360 TATTTTTGTAATCTAATAACAGATTTTAAGCTGTAGTTTTTTATATTTTTTATTAAAACAGATTA
          1 TGTTTTTACAATCTCATAATTGATTTTAAGCTGAATTTTTTTACATTTTTTATTAAAACAGATTA

                     *        *        *                  *         * *      
       1425 TAATTTAATATCTACCTCGAGAAACATAAAGAAAAAGATATCCATTAGTAAGAAAATTGCATTTA
         66 TAATTTAATGTCTACCTCAAGAAACATGAAGAAAAAGATATCCATTGGTAAGAAAAATCCATTTA

                        *                     *       
       1490 TAGTCAC-CATTACCTTCGAAAGCCTTATTACTCACTTTAAA
        131 TAGTCACTCA-TGCCTTCGAAAGCCTTATTACTCGCTTTAAA

                     *                
       1531 TGGTTTTT-TAATCTCATAATTGATT
          1 T-GTTTTTACAATCTCATAATTGATT


Statistics
Matches: 1070,  Mismatches: 265, Indels: 98
        0.75            0.18        0.07

Matches are distributed among these distances:
 166    2  0.00
 167   17  0.02
 168  155  0.14
 169  190  0.18
 170  315  0.29
 171  344  0.32
 172   41  0.04
 173    6  0.01

ACGTcount: A:0.35, C:0.14, G:0.11, T:0.38


Consensus pattern (171 bp):   
TGTTTTTACAATCTCATAATTGATTTTAAGCTGAATTTTTTTACATTTTTTATTAAAACAGATTA
TAATTTAATGTCTACCTCAAGAAACATGAAGAAAAAGATATCCATTGGTAAGAAAAATCCATTTA
TAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAA

Done.