Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018403173.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_840.0, 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: 2312
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.29

Warning! 441 characters in sequence are not A, C, G, or T


Found at i:1008 original size:172 final size:171

Alignment explanation


    Indices: 1--1254  Score: 1258
    Period size: 171  Copynumber: 7.4  Consensus size: 171

                   *               *     **      *               **          
          1 GGTAGACTTTCAATTATAGTCTGCTTTAACCAAAAATATAAAAAAATTCAACTCGAAATCAATTA
          1 GGTAGACATTCAATTATAGTCTGTTTTAAATAAAAATGTAAAAAAATTCAACTTAAAATCAATTA

                          *     *             *     *    *      *            
         66 TAAGATTATAAAACTATTTAGAGCGAGTAATAAGACTTTTAAAGGGAT-GAGTGACTATAAATGG
         66 TAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAG-GAGACTATAAATGG

                  *    * *       *  *                 
        130 ACTTTTTTTGCTAGTGAATGCCTTATTCTTCATGTTTCTCGA
        130 ACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCGA

                               *  *                                      *   
        172 GGTAGACATTCAATTATAGACTATTTT-AATAAAAAATGCT-AAAAAATTCAACTTAAAATTAAT
          1 GGTAGACATTCAATTATAGTCTGTTTTAAAT-AAAAATG-TAAAAAAATTCAACTTAAAATCAAT

                             *           *        *             *            
        235 TA-AGAGATTATAAAACTATTTAAAGCGAATAATATA-ACTTTTGAAGGAATGGGTA-ACTATAA
         64 TATA-AGATTATAAAACCATTTAAAGCGAGTAATA-AGGCTTTTGAAGGAATAGG-AGACTATAA

                      *    *            *               * 
        297 ATGGACTTTTTTTGCTAATGAATG---TCTT-TT--T-TTTCTCAA
        126 ATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCGA

             *        *       *               *               *   *          
        336 GCTAGACATTTAATTATAATCTGTTTTAACA-AATAATGTAAAAAAAATTGAACCTAAAATCAAT
          1 GGTAGACATTCAATTATAGTCTGTTTTAA-ATAAAAATGT-AAAAAAATTCAACTTAAAATCAAT

             * *                                            *  *             
        400 TTTGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAGTAAGAGACTATAAATG
         64 TATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATG

                 *    **            *        *      *  
        465 GACTTATCTTTTCAATGAATGCTTGTTTCTTCACGTTTCTTGA
        129 GACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCGA

            *     *   *                  *                                   
        508 CGTAGATATTTAATTATAGTCTGTTTT-ACTAAAAAATG-AAAACAAATTCAACTTAAAATCAAT
          1 GGTAGACATTCAATTATAGTCTGTTTTAAAT-AAAAATGTAAAA-AAATTCAACTTAAAATCAAT

               *            **       **                   *      *          *
        571 TATGAGATTATAAAACTTTTTAAAGTAAGTAATAAGGCTTTTGAAGTAATAGGTGACTATAAATA
         64 TATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATG

                 *          *     *   *             *  
        636 GACTTCTCTTGCCAATTAATGCCTTTCTCTTCATGTTTCTTGA
        129 GACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCGA

                                  *    * **                                  
        679 GGTAGACATTCAATTATAGTCTATTTTGACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTA
          1 GGTAGACATTCAATTATAGTCTGTTTTAAATAAAAATGTAAAAAAATTCAACTTAAAATCAATTA

                          *   * *                                            
        744 TAAGATTATAAAACAATTCAGAGCGAGTAATAAGGCTTTTGAAGGAATAGGTA-ACTATAAATGG
         66 TAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGG-AGACTATAAATGG

                     *   *                 *  **      * 
        808 ACTTTT-TTTCTCCATGAATG-TCTTTTTCTACACATTTCTCAA
        130 ACTTTTCTTGC-CAATGAATGCT-TTTTTCTTCATGTTTCTCGA

            * *                                                              
        850 AGCACG-CATTCAATTATAGTCTGTTTTAAATAAAAATTGTAAAAAAATTCAACTTAAAATCAAT
          1 GGTA-GACATTCAATTATAGTCTGTTTTAAATAAAAA-TGTAAAAAAATTCAACTTAAAATCAAT

                 *  *                                                       *
        914 TATAAAATGATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATA
         64 TATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATG

                            *              *           
        979 GACTTTTCTTGCCAATCAATGCTTTTTTCTTTATGTTTCTCGA
        129 GACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCGA

                *         *              **                **  *        *    
       1022 GGTAAACATTCAATCATAGTCTGTTTTAACCAAAAATGTAAAAAAAAACCAGCTTAAAATAAATT
          1 GGTAGACATTCAATTATAGTCTGTTTTAAATAAAAATGT-AAAAAAATTCAACTTAAAATCAATT

                                               *  *       *     *            
       1087 ATGAA-ATTATAAAACCATTTAAAGCGAGTAATAAAGCCTTTGAAGAAATAGAAGACTATAAATG
         65 AT-AAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATG

                 * *       **                        *  
       1151 GACTTATATTGCCAACAAATGCTTGTTTT-TTCATGTTTCTTGA
        129 GACTTTTCTTGCCAATGAATGCTT-TTTTCTTCATGTTTCTCGA

                * *        *                                              
       1194 GGTAAATATTCAATTGTAGTCTGTTTT-AATGAAAAATGTAAAAAAATTCAACTTAAAATCA
          1 GGTAGACATTCAATTATAGTCTGTTTTAAAT-AAAAATGTAAAAAAATTCAACTTAAAATCA

       1255 NNNNNNNNNN


Statistics
Matches: 897,  Mismatches: 148, Indels: 76
        0.80            0.13        0.07

Matches are distributed among these distances:
 163    1  0.00
 164   37  0.04
 165   90  0.10
 166    1  0.00
 167    2  0.00
 168    5  0.01
 169    2  0.00
 170    9  0.01
 171  413  0.46
 172  327  0.36
 173   10  0.01

ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35


Consensus pattern (171 bp):   
GGTAGACATTCAATTATAGTCTGTTTTAAATAAAAATGTAAAAAAATTCAACTTAAAATCAATTA
TAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGA
CTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCGA
Done.