Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402597.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5668.0, 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, 993

Length: 1656
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.21

Warning! 708 characters in sequence are not A, C, G, or T


Found at i:343 original size:170 final size:170

Alignment explanation


    Indices: 1--363  Score: 396
    Period size: 170  Copynumber: 2.1  Consensus size: 170

                             *                                               
          1 ATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATCAGTGTGTAAA
          1 ATTATAATCTGTTTTAAACAAAAATGTAAAAAAATTCAAC-TAAAATCAATTATCAGTGTGTAAA

            *                                *       *                   *   
         66 TCCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCTTCTGTGTCAATTAAAAGACTTTTCTTGCCA
         65 ACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGATTCTGTGACAATTAAAAGACTTTTCTTACCA

             *               *              ** *     
        131 ATGAATGCATTTTTCTTTATGTTCCTCGAGGTCGATATTCA
        130 AAGAATGCATTTTTCTTCATGTTCCTCGAGGTAAACATTCA

                  *           *               *  *                 *         
        172 ATT-TAGTCTGTTTTAAATAAAAATGTAAAGAAAGTTGATA-TAAAATCAATTATGAGAT-TGTA
          1 ATTATAATCTGTTTTAAACAAAAATGTAAA-AAAATTCA-ACTAAAATCAATTATCAG-TGTGTA

                         **              *                *       *          
        234 AAACCATTTAAAGTGAG-AATAAGGCTTTTGAAGGAATT-TGTGACTA-TAAATGGACTTTTCTT
         63 AAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGG-ATTCTGTGACAATTAAA-AGACTTTTCTT

                         *              *  *              
        296 ACCAAAGAATGCTTTTTTTCTTCATGTTTCTTGAGGTAAACATTCA
        126 ACCAAAGAATGC-ATTTTTCTTCATGTTCCTCGAGGTAAACATTCA

                    *        *    
        342 ATTATAATTTGTTTTAACCAAA
          1 ATTATAATCTGTTTTAAACAAA

        364 NNNNNNNNNN


Statistics
Matches: 158,  Mismatches: 27, Indels: 14
        0.79            0.14        0.07

Matches are distributed among these distances:
 168    4  0.03
 169   42  0.27
 170   87  0.55
 171   24  0.15
 172    1  0.01

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


Consensus pattern (170 bp):   
ATTATAATCTGTTTTAAACAAAAATGTAAAAAAATTCAACTAAAATCAATTATCAGTGTGTAAAA
CCATTTAAAGCAAGTAATAAGGCTTTCGAAGGATTCTGTGACAATTAAAAGACTTTTCTTACCAA
AGAATGCATTTTTCTTCATGTTCCTCGAGGTAAACATTCA

Found at i:770 original size:171 final size:171

Alignment explanation


    Indices: 467--852  Score: 454
    Period size: 171  Copynumber: 2.3  Consensus size: 171

        457 NNNNNNNNNN

                      *          *           *           *     **      *     
        467 GACTATAAATGGACTTTTCTTACCAATGAATGCCTTTTTCTTCACGTTTCTTGGCGTAGGCATTC
          1 GACTATAAATAGACTTTTCTTGCCAATGAATGCATTTTTCTTCACATTTCTAAGCGTAGACATTC

                      *               **             *                  *    
        532 AATTATAATCTGTTTAAGATAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
         66 AATTATAATCAGTTTAAGATAAAAATAAAAAAAAATTCAACATAAAATCAATTATGAGATAATAA

                                *             *   *   
        597 AACCT-TCCAAAGCGAGTAATAAGACTTTTAAAGGAATGGTT
        131 AA-CTATCCAAAGCGAGTAAAAAGACTTTTAAAGAAATAGTT

                         *                            *                      
        638 GACTATAAATAGAATTTTCTTGCCAATGAATGCATTTTTCTTTACATTTCTCAAG-GTAGACATT
          1 GACTATAAATAGACTTTTCTTGCCAATGAATGCATTTTTCTTCACATTTCT-AAGCGTAGACATT

                    *           *                  * *        *    *         
        702 CAATTATAGTCAGTTTTAA-CTAAAAATAAAAAAAAATTGACCATAAAATTAATTTTGAGATAAT
         65 CAATTATAATCAG-TTTAAGATAAAAATAAAAAAAAATTCAACATAAAATCAATTATGAGATAAT

                    **    *          *     *           
        766 AAAACTATTTAAAGTGAGTAAAAAGGCTTTTGAAGAAATAGTT
        129 AAAACTATCCAAAGCGAGTAAAAAGACTTTTAAAGAAATAGTT

                   *              *                     
        809 GACTATAGATAGACTTTTCTTGTCAATGAATGCATTTTTCTTCA
          1 GACTATAAATAGACTTTTCTTGCCAATGAATGCATTTTTCTTCA

        853 TCTTTCTTGA


Statistics
Matches: 180,  Mismatches: 32, Indels: 6
        0.83            0.15        0.03

Matches are distributed among these distances:
 170    2  0.01
 171  172  0.96
 172    6  0.03

ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36


Consensus pattern (171 bp):   
GACTATAAATAGACTTTTCTTGCCAATGAATGCATTTTTCTTCACATTTCTAAGCGTAGACATTC
AATTATAATCAGTTTAAGATAAAAATAAAAAAAAATTCAACATAAAATCAATTATGAGATAATAA
AACTATCCAAAGCGAGTAAAAAGACTTTTAAAGAAATAGTT
Done.