Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398039.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1347.0, 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: 4785
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.23

Warning! 1768 characters in sequence are not A, C, G, or T


Found at i:958 original size:172 final size:156

Alignment explanation


    Indices: 692--1019  Score: 325
    Period size: 172  Copynumber: 2.0  Consensus size: 156

        682 AGTTGAATTT

                                  *                             *            
        692 TTTTATATTGTTTATGAAAACAGACTATAATTGAATACCTGCTTGTCGAAACGTGAAGAAAAAGC
          1 TTTTATATTGTTTATGAAAACAAACTATAATTGAATACCTGCTTG-CGAAACATGAAGAAAAAGC

              *      **     *                  *                             
        757 CTGTTCATTGTGAAGAGAAGTCCATTTATAGTCACTCATACCTTCAAAAGCCTTATTACCCACTT
         65 CTATTCATTCAGAAGAAAAGTCCATTTATAGTCACCCATACCTTCAAAAGCCTTATTACCCACTT

                                       
        822 CAAATGGTTTTATAATCTCATAATTGA
        130 CAAATGGTTTTATAATCTCATAATTGA

                                    *     *                                  
        849 TTNNNNNNNNNNNNNNNTTATATTTTTTATTAAAACAAACTATAATTGAATACCTGCCTTAG-GA
          1 TT---------------TTATATTGTTTATGAAAACAAACTATAATTGAATACCTG-CTT-GCGA

                  **                              *              * *         
        913 AACATGTTGAAAAAGCCTATTCATTCAGAAGAAAAGTCTATTTATAGTCACCCGTTCCTTCAAAA
         49 AACATGAAGAAAAAGCCTATTCATTCAGAAGAAAAGTCCATTTATAGTCACCCATACCTTCAAAA

                      * **  *                         
        978 GCCTTATTACTCGGTTTAAATGGTTTTATAATCTCATAATTG
        114 GCCTTATTACCCACTTCAAATGGTTTTATAATCTCATAATTG

       1020 NNNNNNNNNN


Statistics
Matches: 136,  Mismatches: 18, Indels: 19
        0.79            0.10        0.11

Matches are distributed among these distances:
 157    2  0.01
 172  130  0.96
 173    3  0.02
 174    1  0.01

ACGTcount: A:0.33, C:0.16, G:0.12, T:0.34


Consensus pattern (156 bp):   
TTTTATATTGTTTATGAAAACAAACTATAATTGAATACCTGCTTGCGAAACATGAAGAAAAAGCC
TATTCATTCAGAAGAAAAGTCCATTTATAGTCACCCATACCTTCAAAAGCCTTATTACCCACTTC
AAATGGTTTTATAATCTCATAATTGA

Found at i:1430 original size:171 final size:169

Alignment explanation


    Indices: 1120--1751  Score: 626
    Period size: 171  Copynumber: 3.7  Consensus size: 169

       1110 NNNNNNNNNN

                                                         *         *         
       1120 ATAATTGATTTTAAGTTAAA-TTTTTTACATTTTTTGTTAAAACAAACTATAATTGAATACCTGC
          1 ATAATTGATTTTAAGTTAAATTTTTTTACA-TTTTTGTTAAAACAGACTATAATTAAATACCTGC

              * *        *       *  **        *                        ******
       1184 CTTAGGAAACATGCAAAAAAAGCTTGTTCATTGACAAGAAAAGTCCATTTATAGTCACCNNNNNN
         65 CTCAAGAAACATGTAAAAAAAAC-CATTCATTGAGAAGAAAAGTCCATTTATAGTCACCCATTCC

            ****                                      
       1249 NNNNAAAGCCTTATTACTCAGTTTAAATGGTTTTATAATATC
        129 TTCAAAAGCCTTATTACTC-GTTTAAATGGTTTTATAATATC

                       *     *   *     *                                     
       1291 ATAATTGATTTGAAGTTGAATGTTTTTGCATTTTTGGTTAAAACAGACTATAATTAAATACCTGC
          1 ATAATTGATTTTAAGTTAAATTTTTTTACATTTTT-GTTAAAACAGACTATAATTAAATACCTGC

                                                *                      *  *  
       1356 CTCAAGAAACATGTAAAAAAAACCATTCATTGAGAATAAAAGTCCATTTATAGTCACCCTTTTCT
         65 CTCAAGAAACATGTAAAAAAAACCATTCATTGAGAAGAAAAGTCCATTTATAGTCACCCATTCCT

                       *            *  *          *  
       1421 TCAAAAGCCTTCTTACTCGGTTTAGATAGTTTTATAATCTC
        130 TCAAAAGCCTTATTACTC-GTTTAAATGGTTTTATAATATC

                           * *                   *         *           * *   
       1462 ATAATTGATTTTAAGATGAATTTTTTTACATTTTTAGATAAAACAGAATATAATTAAATGCATGC
          1 ATAATTGATTTTAAGTTAAATTTTTTTACATTTTT-GTTAAAACAGACTATAATTAAATACCTGC

                                                        * *      *   *       
       1527 CTCAAGAAACATGTAAAAAAAACCATTCATTGAGAAGAAAAGTCTAGTTATAGCCACTCATTCCT
         65 CTCAAGAAACATGTAAAAAAAACCATTCATTGAGAAGAAAAGTCCATTTATAGTCACCCATTCCT

                   **              *             *   
       1592 TCAAAAGGATTATTACTCGCTTTTAATGGTTTTATAACATC
        130 TCAAAAGCCTTATTACTCG-TTTAAATGGTTTTATAATATC

                * *                            *        *              **  * 
       1633 ATAACTAATTTTAAGTTAAATTTTTTTACATTTTTTTTAAAACACACTAT-A-TAGAATGTCTAC
          1 ATAATTGATTTTAAGTTAAATTTTTTTACATTTTTGTTAAAACAGACTATAATTA-AATACCTGC

               ** *         *     **                     *            
       1696 CT-TGGGAACATGCT-GAAAAAGGCATTCATTGAGAAGAAAAGTCTATTTATAGTCAC
         65 CTCAAGAAACATG-TAAAAAAAACCATTCATTGAGAAGAAAAGTCCATTTATAGTCAC

       1752 NNNNNNNNNN


Statistics
Matches: 384,  Mismatches: 72, Indels: 13
        0.82            0.15        0.03

Matches are distributed among these distances:
 168   46  0.12
 169   10  0.03
 170   12  0.03
 171  263  0.68
 172   53  0.14

ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36


Consensus pattern (169 bp):   
ATAATTGATTTTAAGTTAAATTTTTTTACATTTTTGTTAAAACAGACTATAATTAAATACCTGCC
TCAAGAAACATGTAAAAAAAACCATTCATTGAGAAGAAAAGTCCATTTATAGTCACCCATTCCTT
CAAAAGCCTTATTACTCGTTTAAATGGTTTTATAATATC
Done.