Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398385.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1681.0, 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: 1717
ACGTcount: A:0.24, C:0.09, G:0.08, T:0.24

Warning! 616 characters in sequence are not A, C, G, or T


Found at i:336 original size:172 final size:172

Alignment explanation


    Indices: 19--470  Score: 426
    Period size: 172  Copynumber: 2.6  Consensus size: 172

          9 GTCTACCATG

                       *       *         *      *            *         *     
         19 AGAAACATGAAGAAAAAAGTATTCATTGGTAAGAAAGGT-CTATTTATAATCACCCATTGCTTCA
          1 AGAAACATGAAAAAAAAAGAATTCATTGGCAAGAAAAGTAC-ATTTATAGTCACCCATTCCTTCA

                        *           *       *       **********  *  *    *    
         83 AAAGCCTTATTAATCACTTTAAATTGTTTTATCATCTCAANNNNNNNNNNAAGTTCAATTTTTTT
         65 AAAGCCTTATTACTCACTTTAAATAGTTTTATAATCTCAAAATTAATTTAAATTTGAATTCTTTT

             *                 * *  *     *             
        148 TCCTTTTCTAGTTAAAACATATTATAATTGTACGTCTA-TCCCA
        130 TACTTTTCTAGTTAAAACAGACTAGAATTGAACGTCTACT-CCA

                 *         *                                      *          
        191 AGAAAGAT-AAAGAAGAAAGAATTCATTGGCAAGAAAAG-ACTATTTATAGTCATCCATTCCTTC
          1 AGAAACATGAAA-AAAAAAGAATTCATTGGCAAGAAAAGTAC-ATTTATAGTCACCCATTCCTTC

                             *        *                                      
        254 AAAAGCCTTATTACTCATTTTAAATATTTTTATAATCTCAAAATTAATTTAAATTTGAATTCTTT
         64 AAAAGCCTTATTACTCACTTTAAATAGTTTTATAATCTCAAAATTAATTTAAATTTGAATTCTTT

                    * *          *           *       ** 
        319 TTACTTTTTTGGTTAAAACAGGCTAGAATTGAATGTCTACTTTA
        129 TTACTTTTCTAGTTAAAACAGACTAGAATTGAACGTCTACTCCA

                               *         *         * *                       
        363 AGAAACATGAAAAAAAAAGCATTCATTGGTAAGAAAAGTGCCTTTATAGTCACCCATTCCTTCAA
          1 AGAAACATGAAAAAAAAAGAATTCATTGGCAAGAAAAGTACATTTATAGTCACCCATTCCTTCAA

                       *  *    *   *                   
        428 AAGCCTTATTATTCGCTTTGAATGGTTTTATAATCTCAAAATT
         66 AAGCCTTATTACTCACTTTAAATAGTTTTATAATCTCAAAATT

        471 NNNNNNNNNN


Statistics
Matches: 224,  Mismatches: 51, Indels: 10
        0.79            0.18        0.04

Matches are distributed among these distances:
 171    2  0.01
 172  217  0.97
 173    5  0.02

ACGTcount: A:0.37, C:0.14, G:0.11, T:0.36


Consensus pattern (172 bp):   
AGAAACATGAAAAAAAAAGAATTCATTGGCAAGAAAAGTACATTTATAGTCACCCATTCCTTCAA
AAGCCTTATTACTCACTTTAAATAGTTTTATAATCTCAAAATTAATTTAAATTTGAATTCTTTTT
ACTTTTCTAGTTAAAACAGACTAGAATTGAACGTCTACTCCA

Found at i:1201 original size:172 final size:172

Alignment explanation


    Indices: 915--1293  Score: 440
    Period size: 172  Copynumber: 2.2  Consensus size: 172

        905 NNNNNNNGGA

                              * *           *                                
        915 TAGAATTGAATGTCTACCTTGAGAAACATGAATAAAAAAGAATTCATTGGCAAGAAAAGTGCATT
          1 TAGAATTGAATGTCTACCATAAGAAACATGAAGAAAAAAGAATTCATTGGCAAGAAAAGTGCATT

                                           **                                
        980 TATAGTCACCCATTCCTTCTAAAGCCTTATTTTTCACTTTAAATAGTTTTATAATCTCAAAATTG
         66 TATAGTCACCCATTCCTTCTAAAGCCTTATTAATCACTTTAAATAGTTTTATAATCTCAAAATTG

                   *                           *        
       1045 ATTTAAATTTCAATGTTTTGTGCATTTT-T-GTTTCAAATAGAC
        131 ATTTAAAGTTCAATGTTTTGTGC-TTTTCTAG-TTAAAATAGAC

                                   *                *         *              
       1087 TAGAATTGAATGTCTACCATAAGCAACATGAAGAAAAAAGTATTCATTGGTAAGAAAAGT-CTAT
          1 TAGAATTGAATGTCTACCATAAGAAACATGAAGAAAAAAGAATTCATTGGCAAGAAAAGTGC-AT

                         **********                                    *     
       1151 TTATAGTCACCCANNNNNNNNNNAGCCTTATTAATCACTTTAAATAGTTTTATAATCTCCAAATT
         65 TTATAGTCACCCATTCCTTCTAAAGCCTTATTAATCACTTTAAATAGTTTTATAATCTCAAAATT

                 *         *    *                   * *
       1216 GATTTTAAGTTCAATTTTTTTTGCTTTTCTAGTTAAAATATAT
        130 GATTTAAAGTTCAATGTTTTGTGCTTTTCTAGTTAAAATAGAC

              *               * *        *     
       1259 TATAATTGAATGTCTACCCTGAGAAACATAAAGAA
          1 TAGAATTGAATGTCTACCATAAGAAACATGAAGAA

       1294 GAGAGCANNN


Statistics
Matches: 173,  Mismatches: 31, Indels: 6
        0.82            0.15        0.03

Matches are distributed among these distances:
 171    5  0.03
 172  167  0.97
 173    1  0.01

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


Consensus pattern (172 bp):   
TAGAATTGAATGTCTACCATAAGAAACATGAAGAAAAAAGAATTCATTGGCAAGAAAAGTGCATT
TATAGTCACCCATTCCTTCTAAAGCCTTATTAATCACTTTAAATAGTTTTATAATCTCAAAATTG
ATTTAAAGTTCAATGTTTTGTGCTTTTCTAGTTAAAATAGAC
Done.