Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018403081.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_747.0, 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: 2691
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.26

Warning! 697 characters in sequence are not A, C, G, or T


Found at i:1581 original size:171 final size:171

Alignment explanation


    Indices: 1363--1766  Score: 398
    Period size: 171  Copynumber: 2.4  Consensus size: 171

       1353 NNNNNNNNNN

                         *                        * *        *             * 
       1363 TGAGATTATAAAATCATTTAAAATAAGTAATAAGGCTTTTGAAGGAATGTGAGACTATAAATAGA
          1 TGAGATTATAAAACCATTTAAAATAAGTAATAAGGCTTCTAAAGGAATGGGAGACTATAAATACA

                    *           *   *             *  * *                   * 
       1428 CCTT-ATTGCCAATGAATGCCTTTTTCTTCACGTTTCTTAATATAGACATTCAATTATAATATGT
         66 CCTTCATTACCAATGAATGCATTTCTCTTCACGTTTCTCAAGACAGACATTCAATTATAATATAT

                                               *     *
       1492 TTTTAACAAAAATAATAAAAAAATTAAACTTAAAATAAATTT
        131 TTTTAACAAAAAT-ATAAAAAAATTAAACTTAAAACAAATTA

                               *  * *         *                *          *  
       1534 TGAGATTATAAAACCATTTTAAGTGAGTAATAAGTCTTCTAAAGGAATGGGTGACTATAAATTCA
          1 TGAGATTATAAAACCATTTAAAATAAGTAATAAGGCTTCTAAAGGAATGGGAGACTATAAATACA

             *   *    *                               *   *            * *   
       1599 CTTTCCTTACTAATGAATGCATTTCTCTTCACGTTTCTCAAGGCAGGCATTCAATTATAGTCTAT
         66 CCTTCATTACCAATGAATGCATTTCTCTTCACGTTTCTCAAGACAGACATTCAATTATAATATAT

                 * *       *        **         * *   
       1664 TTTTACCTAAAATATTAAAAAATTCTACTTAAAACCAGTTA
        131 TTTTAACAAAAATATAAAAAAATTAAACTTAAAACAAATTA

                          *          *     *    *  * *        *  *         
       1705 TGAGATTATAAAACTATTT-AAATCGAGTAAAAAGGATTTTGAAGGAATGAGACACTATAAAT
          1 TGAGATTATAAAACCATTTAAAAT-AAGTAATAAGGCTTCTAAAGGAATGGGAGACTATAAAT

       1767 GGACTTTTCT


Statistics
Matches: 187,  Mismatches: 44, Indels: 4
        0.80            0.19        0.02

Matches are distributed among these distances:
 170    3  0.02
 171  126  0.67
 172   58  0.31

ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35


Consensus pattern (171 bp):   
TGAGATTATAAAACCATTTAAAATAAGTAATAAGGCTTCTAAAGGAATGGGAGACTATAAATACA
CCTTCATTACCAATGAATGCATTTCTCTTCACGTTTCTCAAGACAGACATTCAATTATAATATAT
TTTTAACAAAAATATAAAAAAATTAAACTTAAAACAAATTA

Found at i:1828 original size:171 final size:170

Alignment explanation


    Indices: 1651--2046  Score: 416
    Period size: 170  Copynumber: 2.3  Consensus size: 170

       1641 GCAGGCATTC

                            *  **                 *                    *     
       1651 AATTATAGTCTATTTTTACCTAAAATATTAAAAAATTCTACTTAAAACCAGTTATGAGATTATAA
          1 AATTATAGTCTATTTTAACAAAAAATA-TAAAAAATTCAACTTAAAACCAGTTATGAGACTATAA

               *       * *               *                      *            
       1716 AACTATTTAAATCGAGTAAAAAGGATTTTGAAGGAATGAGACACTATAAATGGACTTTTCTTCCA
         65 AACCATTTAAAGCAAGTAAAAAGGATTTTAAAGGAATGAGACACTATAAATGAACTTTTCTTCCA

                                                     
       1781 AATAAATGGGTTTTTTTACATATTGCTTGAGGCAAGAATTG
        130 AATAAATGGGTTTTTTTACATATTGCTTGAGGCAAGAATTG

                                                      **********             
       1822 AATTATAGTCTATTTTAACAAAAAATATAAAAAATTCAACTTNNNNNNNNNNATGAGACTATAAA
          1 AATTATAGTCTATTTTAACAAAAAATATAAAAAATTCAACTTAAAACCAGTTATGAGACTATAAA

                              *    *         **  *  *                 *      
       1887 ACCATTTAAAGCAAGTAATAAGGCTTTTAAAGGTGTGGGATACTATAAATGAACTTTTTTTCCAA
         66 ACCATTTAAAGCAAGTAAAAAGGATTTTAAAGGAATGAGACACTATAAATGAACTTTTCTTCCAA

                                *  * ***   * * *     
       1952 ATAAATGGGTTTTTTTACATGTTTCCCAAGGTAGGCATTCG
        131 ATAAATGGGTTTTTTTACATATTGCTTGAGGCAAGAATT-G

                              *       *                   *  *     
       1993 -ATTATAGTCTATTTTAATAAAAAATGTAAAAAATTCAACTTAAAATCAATTATG
          1 AATTATAGTCTATTTTAACAAAAAATATAAAAAATTCAACTTAAAACCAGTTATG

       2047 NNNNNNNNNN


Statistics
Matches: 177,  Mismatches: 47, Indels: 3
        0.78            0.21        0.01

Matches are distributed among these distances:
 170  152  0.86
 171   25  0.14

ACGTcount: A:0.40, C:0.10, G:0.13, T:0.35


Consensus pattern (170 bp):   
AATTATAGTCTATTTTAACAAAAAATATAAAAAATTCAACTTAAAACCAGTTATGAGACTATAAA
ACCATTTAAAGCAAGTAAAAAGGATTTTAAAGGAATGAGACACTATAAATGAACTTTTCTTCCAA
ATAAATGGGTTTTTTTACATATTGCTTGAGGCAAGAATTG

Done.