Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401147.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4300.0, 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: 2568
ACGTcount: A:0.25, C:0.07, G:0.08, T:0.20

Warning! 1033 characters in sequence are not A, C, G, or T


Found at i:1879 original size:171 final size:160

Alignment explanation


    Indices: 1632--2089  Score: 342
    Period size: 170  Copynumber: 2.7  Consensus size: 160

       1622 TATTTTAATT

                        **                                  *       **       
       1632 AAAAATATAAAATTATTCAACTTAAAACAAATTATGAGATTATAAAACTATTTAAAGCCAGTACT
          1 AAAAATATAAAAAAATTCAACTTAAAACAAATTATGAGATTATAAAACAATTTAAAAACAGTACT

            *                                                                
       1697 TAGGCTTTTGAAGGAATGAGTGAC-TATAAAT-AGA-TTTT-TTTAACCAATGAATGCCTTTTTC
         66 AAGGCTTTTGAAGGAATGAGT-ACTTATAAATGA-ACTTTTCTTT--CCAATGAATGCCTTTTTC

              *             *                  
       1758 TTCACGTTTCTCGAGATAAACATTCAATTATAGTC
        127 -TAACGTTTCTCGAGACAAACATTCAATTATAGTC

                                                 **    *                     
       1793 NNNNNNNNNNAAAAATATAAAAAAATTCAACTTAAAATTAATTTTGAGATTATAAAACAATTTAA
          1 ----------AAAAATATAAAAAAATTCAACTTAAAACAAATTATGAGATTATAAAACAATTTAA

               *                         *                                  *
       1858 AAAGAGTAGC-AAGGCTTTTGAAGGAATGCGTACTTATAAATGAACTTTTCTTTCCAATGAATGG
         56 AAACAGTA-CTAAGGCTTTTGAAGGAATGAGTACTTATAAATGAACTTTTCTTTCCAATGAATGC

            *                *   *        *          
       1922 TTTTTTCTAACGTTTCTTGAGGCAAACATTGAATTATAGTC
        120 CTTTTTCTAACGTTTCTCGAGACAAACATTCAATTATAGTC

                      * *              * *                                   
       1963 TATTTAAACAAAAAATGTGAAAACATTTAGCTTAAAATC-AATTATGAGATTATAAAACAATTTA
          1 -A---AAA-ATATAA----AAAA-ATTCAACTTAAAA-CAAATTATGAGATTATAAAACAATTTA

                       *     *             *                                 
       2027 AAGCAAC--TAATAAGGATTTTGAAGGAATGGGTGA-TTATAAATGAACTTTTC-TTCTCAATGA
         55 AA--AACAGTACTAAGGCTTTTGAAGGAATGAGT-ACTTATAAATGAACTTTTCTTTC-CAATGA

              
       2088 AT
        116 AT

       2090 TGCTTTTNNN


Statistics
Matches: 238,  Mismatches: 29, Indels: 41
        0.77            0.09        0.13

Matches are distributed among these distances:
 161    1  0.00
 164    3  0.01
 165    4  0.02
 169    7  0.03
 170  114  0.48
 171   98  0.41
 172    8  0.03
 173    3  0.01

ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34


Consensus pattern (160 bp):   
AAAAATATAAAAAAATTCAACTTAAAACAAATTATGAGATTATAAAACAATTTAAAAACAGTACT
AAGGCTTTTGAAGGAATGAGTACTTATAAATGAACTTTTCTTTCCAATGAATGCCTTTTTCTAAC
GTTTCTCGAGACAAACATTCAATTATAGTC
Done.