Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402989.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_654.0, 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, 603

Length: 1005
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.30

Warning! 159 characters in sequence are not A, C, G, or T


Found at i:390 original size:171 final size:172

Alignment explanation


    Indices: 13--677  Score: 722
    Period size: 171  Copynumber: 3.9  Consensus size: 172

          3 GCTTTGTTAG

                                               *   *    *                *  *
         13 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTAAAATTTGACTTCTTTGTACATTTTTTGTA
          1 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAAGTTGAATTCTTTGTACATTTTTGGTT

                  *           *                                              
         78 AAAACATATTATAATTGAGTGTA-AACCTCAAGAAACATGAAGAAAAAGGTATAT-ATTGGCAAG
         66 AAAACAGATTATAATTGAATG-ACAACCTCAAGAAACATGAAGAAAAAGGTAT-TCATTGGCAAG

                  *                     **                
        141 AAAAATAC-ATTTATAGTCACCCATTCCACCAAAAG-CTTCATTAC
        129 -AAAATTCTATTTATAGTCACCCATTCCTTCAAAAGCCTT-ATTAC

                                    *  **        **                          
        185 TCACTTTAAATGGTTTTATAA-CGCCATTATTGATTTTTAGTTGAAGTT-TTT-TACATTTTTGG
          1 TCACTTTAAATGGTTTTATAATC-TCAAAATTGATTTAAAGTTGAA-TTCTTTGTACATTTTTGG

                      *     *     *    *  **       **              **        
        247 TTAAAACAGACTATAACTGAATAACAATCTTGAGAAACACAAAGAAAAAGGTATTTGTTGGCAAG
         64 TTAAAACAGATTATAATTGAATGACAACCTCAAGAAACATGAAGAAAAAGGTATTCATTGGCAAG

                *                                   *   
        312 AAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTAATAC
        129 AAAATTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC

                             *                 *   *              *       *  
        356 TCACTTTAAATGGTTTTGTAATCTCAAAATTGATTGAAATTTGAATTCTTTGTAGATTTTTGATT
          1 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAAGTTGAATTCTTTGTACATTTTTGGTT

                  *         *    *    *    *          * *    *               
        421 AAAA-AAATTATAATTAAATGTCAACATCAATAAACATGAAGGAGAAGGCATTCATTGGCAAGAA
         66 AAAACAGATTATAATTGAATGACAACCTCAAGAAACATGAAGAAAAAGGTATTCATTGGCAAGAA

                           *                  *       
        485 AATTCTATTTATAGTAACCCATTCCTTCAAAAGCGTTATTAC
        131 AATTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC

              **                             *            *          *    *  
        527 TCGTTTTAAATGGTTTTATAATCTCAAAATTGAATTAAAGTTGAATACTTTGTACATCTTT-CTA
          1 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAAGTTGAATTCTTTGTACATTTTTGGT-

                                  *       *      *                      *    
        591 TAAAACAGATTATAATTGAATGTCAACCTCCAGAAACTTGAAGAAAAAGG--TTCATTGGTAAGA
         65 TAAAACAGATTATAATTGAATGACAACCTCAAGAAACATGAAGAAAAAGGTATTCATTGGCAAGA

                                    
        654 AAATTCTATTTATAGTCACCCATT
        130 AAATTCTATTTATAGTCACCCATT

        678 NNNNNNNNNN


Statistics
Matches: 404,  Mismatches: 78, Indels: 24
        0.80            0.15        0.05

Matches are distributed among these distances:
 170   45  0.11
 171  264  0.65
 172   93  0.23
 173    2  0.00

ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36


Consensus pattern (172 bp):   
TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAAGTTGAATTCTTTGTACATTTTTGGTT
AAAACAGATTATAATTGAATGACAACCTCAAGAAACATGAAGAAAAAGGTATTCATTGGCAAGAA
AATTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC
Done.