Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399176.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2449.0, 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: 2182
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.29

Warning! 472 characters in sequence are not A, C, G, or T


Found at i:943 original size:26 final size:26

Alignment explanation


    Indices: 913--965  Score: 88
    Period size: 26  Copynumber: 2.0  Consensus size: 26

        903 TTTTAAGGTA

                       *      *       
        913 TGGGAGACTATGAATGGATTTTTCTT
          1 TGGGAGACTATAAATGGACTTTTCTT

                                      
        939 TGGGAGACTATAAATGGACTTTTCTT
          1 TGGGAGACTATAAATGGACTTTTCTT

             
        965 T
          1 T

        966 CAAATGAATG


Statistics
Matches: 25,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  26   25  1.00

ACGTcount: A:0.25, C:0.09, G:0.25, T:0.42


Consensus pattern (26 bp):   
TGGGAGACTATAAATGGACTTTTCTT

Found at i:1435 original size:171 final size:169

Alignment explanation


    Indices: 939--1611  Score: 638
    Period size: 171  Copynumber: 3.9  Consensus size: 169

        929 GATTTTTCTT

                *             *                  **  *    *   *    *        *
        939 TGGGAGACTATAAATGGACTTTTCTTTCAAATGAATGATTTTTTCTACACATTTCCTGAGGTAGG
          1 TGGGTGACTATAAATGGAGTTTTCTTTC-AATGAATGCCTTATTCTTCACGTTTCATGAGGTAGA

                        *   *                                             * *
       1004 CATTCAATTATAGTCTATTTTAA-TAAAACATGTAAAAAATTCAACTTAAAATCAATTATGAGAC
         65 CATTCAATTATAATCTGTTTTAACTAAAA-ATGTAAAAAATTCAACTTAAAATCAATTATGACAT

                   *                           *      
       1068 TATAAAAGAATTTAAAGTGAGTAAT-AGGTCTTTTGAAGGAA
        129 TATAAAACAATTTAAAGTGAGTAATAAGG-CTTTTAAAGGAA

                         *             *             *                       
       1109 TGGGTGACTATAAGTGGAGTTTTCTTCACAATGAATGCCTTTTTCTTCACGTTTCATGAGGTAGA
          1 TGGGTGACTATAAATGGAGTTTTCTT-TCAATGAATGCCTTATTCTTCACGTTTCATGAGGTAGA

                          *         *      *         *                  *  **
       1174 CATTCAATTATAATATG-TTTAACCAAAAATATACAAAGAACTCAA-TTGAAAATCAATTTTGGG
         65 CATTCAATTATAATCTGTTTTAACTAAAAATGTA-AAA-AATTCAACTT-AAAATCAATTATGAC

                     **********                         
       1237 ATTATAAAANNNNNNNNNNTGAGTAATAAGGCTTTTAAAGGAGA
        127 ATTATAAAACAATTTAAAGTGAGTAATAAGGCTTTTAAAGGA-A

                              *             **********             *         
       1281 -GGGTGACTATAAATGGACTTTTCTTGTCAATNNNNNNNNNNTTCTTCACGTTTCTTGAGGTAGA
          1 TGGGTGACTATAAATGGAGTTTTCTT-TCAATGAATGCCTTATTCTTCACGTTTCATGAGGTAGA

                   *      *                                *                 
       1345 CATTCAAATATAATTTGTTTTAACTAAAAATGTAAAAAATTACAACTCAAAATCAATTATGACAT
         65 CATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAATT-CAACTTAAAATCAATTATGACAT

                    *         *          *            
       1410 TATAAAACCATTTAAAGTAAGTAATAAGGGTTTTGAAA-GAA
        129 TATAAAACAATTTAAAGTGAGTAATAAGGCTTTT-AAAGGAA

                                         *        *          *               
       1451 TGGGTGACTATAAATGGAGTTTTCTTTCTGATGAATGCTTTATTCTTCATGTTTCATGAGGTAGA
          1 TGGGTGACTATAAATGGAGTTTTCTTTC-AATGAATGCCTTATTCTTCACGTTTCATGAGGTAGA

                        *            *             * *            *          
       1516 CATTCAATTATAGTCTGTTTTAACTGAAAATGTAAAAAAATAAACTTAAAATCAGTTATGACATT
         65 CATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAATTCAACTTAAAATCAATTATGACATT

                   *                       
       1581 ATAAAACTATTTAAAGTGAGTAATAAGGCTT
        130 ATAAAACAATTTAAAGTGAGTAATAAGGCTT

       1612 NNNNNNNNNN


Statistics
Matches: 399,  Mismatches: 91, Indels: 26
        0.77            0.18        0.05

Matches are distributed among these distances:
 169    9  0.02
 170  131  0.33
 171  237  0.59
 172   22  0.06

ACGTcount: A:0.37, C:0.11, G:0.15, T:0.34


Consensus pattern (169 bp):   
TGGGTGACTATAAATGGAGTTTTCTTTCAATGAATGCCTTATTCTTCACGTTTCATGAGGTAGAC
ATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAATTCAACTTAAAATCAATTATGACATTA
TAAAACAATTTAAAGTGAGTAATAAGGCTTTTAAAGGAA
Done.