Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401645.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4762.0, 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: 1806
ACGTcount: A:0.19, C:0.07, G:0.09, T:0.21

Warning! 803 characters in sequence are not A, C, G, or T


Found at i:486 original size:171 final size:168

Alignment explanation


    Indices: 1--724  Score: 566
    Period size: 172  Copynumber: 4.2  Consensus size: 168

                  *                 *    *     *           *          *      
          1 TTTAACAAAAAATGTAAAAAACTTTAACTAAAAATTAATTATGGCATGATAAAATCATTTAAAGC
          1 TTTAACTAAAAATGTAAAAAA-TTCAACTTAAAATCAATTATGGCATTATAAAATCATGTAAAGC

                    *                             *   *              *       
         66 GAGA-AATGAGGCTTTTGAAGGAATGGGTGACTATAAACGGATTTTTCTTGCCAATGTATGCCTT
         65 GA-ATAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTT

              *    *       **      *              *   
        130 TTTCTTCTTGTTTCTTAAGGCTGCCATTCAATTATAATTTGT
        129 TTCCTTCATGTTTCTCGAGG-TGACA-TCAATTATAATCTGT

                                 *    *  *  *      *  *     *               *
        172 TTTAA-TAAAAAATGTGCAAAGAATTGAAATTTAAATCAGTTTTGAG-TTTATAAAATCATGTAT
          1 TTTAACT-AAAAATGT--AAAAAATTCAACTTAAAATCAATTATG-GCATTATAAAATCATGTAA

              *  *   *  *                    *  *                    **      
        235 AGTGAGTAAAAATGCTTTTGAAGGAATGGGTGATTAGAAATGGACTTTTCTTGCCAACCAATGCC
         62 AGCGAATAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCC

                  **                           * **     
        300 TTTTTCAGT-ATGTTTCTCGAGGTAGACATCAATTCTTGTCTGT
        127 -TTTTCCTTCATGTTTCTCGAGGT-GACATCAATTATAATCTGT

                                                     *        *   *         *
        343 TTTAACTAAAAATGTAAAAAAGTTCAACTTAAAATCAATTACGGCATTATGAAACCATGTAAAGG
          1 TTTAACTAAAAATGTAAAAAA-TTCAACTTAAAATCAATTATGGCATTATAAAATCATGTAAAGC

                                               *                             
        408 GAATAATAAGGCTTTTTGAAGGAATGGGTGACTATTAATGGACTTTTCTTGCCAATGAATGCCTT
         65 GAATAATAAGGC-TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTT

             *             *            *        *  * 
        473 TACCTTCATGTTTCTGGAGGTTGACATTGAATTATAACCTTT
        129 TTCCTTCATGTTTCTCGAGG-TGACA-TCAATTATAATCTGT

               *      *                  *  **        *  **    *        *    
        515 TTTGA-TGAACAATGTACAAAAAATTCAAATTGCAATCAATTTTGATATTACAAAATCATTTAAA
          1 TTTAACT-AAAAATGT--AAAAAATTCAACTTAAAATCAATTATGGCATTATAAAATCATGTAAA

                 *              **                              *      *     
        579 GTC-AGTAATAAGGCTTTTGGGGGAATGGGTGACTATAAATGGACTTTTCTTTCCAATGCA--CC
         63 G-CGAATAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCC

                *      *                       *     *   
        641 TTTTTCTTCATATTTCT-GAAGGTTGACATTCAATCATAATTTGT
        127 TTTTCCTTCATGTTTCTCG-AGG-TGACA-TCAATTATAATCTGT

                               *       *  *         
        685 TTTAACTAAAAATGTCAAAGAATTCAAATTTAAATCAATT
          1 TTTAACTAAAAATGT-AAAAAATTCAACTTAAAATCAATT

        725 TTGAGATTNN


Statistics
Matches: 434,  Mismatches: 99, Indels: 42
        0.75            0.17        0.07

Matches are distributed among these distances:
 169   29  0.07
 170   91  0.21
 171  101  0.23
 172  155  0.36
 173   52  0.12
 174    6  0.01

ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36


Consensus pattern (168 bp):   
TTTAACTAAAAATGTAAAAAATTCAACTTAAAATCAATTATGGCATTATAAAATCATGTAAAGCG
AATAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTT
CCTTCATGTTTCTCGAGGTGACATCAATTATAATCTGT
Done.