Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402398.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5477.0, 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, 601

Length: 1003
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.28

Warning! 234 characters in sequence are not A, C, G, or T


Found at i:421 original size:170 final size:169

Alignment explanation


    Indices: 10--657  Score: 685
    Period size: 171  Copynumber: 3.8  Consensus size: 169

          1 TGGTGAAAG

                                     *     *                  *     **       
         10 TAGATTATAATTGAATGTCTACCTCAAGAAATGTGAAGAAAAA-ACCATTTATTGGTGAGAAAAG
          1 TAGATTATAATTGAATGTCTACCTCGAGAAAAGTGAAGAAAAAGA-CATTCATTGGCAAGAAAAG

                            *        *           *   *                    *  
         74 TCCATTTATACTCACCAATGCCTACGAAAGCCTTATTGCTCGCTTTAAATGGTTTTATAATAACA
         65 TCCATTTATACTCACCCATGCCTACAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATATCA

                                       *              
        139 TAATTGATTTTAAGTTGAATTTTTTTATACTTTTTATTAAAA
        130 TAATTGA-TTTAAGTTGAATTTTTTTACA-TTTTTATTAAAA

                          *                 *           * *    *       *    *
        181 TAGATTATAATTGATTGTCTACCTC-AGGAAACGTGAAGAAAAATATATTCCTTGGCAACAAAAA
          1 TAGATTATAATTGAATGTCTACCTCGA-GAAAAGTGAAGAAAAAGACATTCATTGGCAAGAAAAG

                      *      *     **                                  *     
        245 TCCATTTATAGTCACCCTTGCCTTTAAAAGCCTTATTACTCACTTTAAATGGTTTTATAGTATCA
         65 TCCATTTATACTCACCCATGCCTACAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATATCA

                            *      *                 
        310 TAATTGATTTCAAGTTTAATTTTCTTACATTTTTATTAAAA
        130 TAATTGATTT-AAGTTGAATTTTTTTACATTTTTATTAAAA

                 *               *  *                    *                   
        351 TAGATGATAATTGAATGTCTATCTTGAGAAAAGTGAAGAAAAAGATATTCATTGGCAAGAAAAGT
          1 TAGATTATAATTGAATGTCTACCTCGAGAAAAGTGAAGAAAAAGACATTCATTGGCAAGAAAAGT

                    **     *                          *         *        *   
        416 CCATTTATTGTCACCTATGCCT-CTAAAAGCCTTATTACTCATTTTAAATGGCTTTATAATCTCA
         66 CCATTTATACTCACCCATGCCTAC-AAAAGCCTTATTACTCACTTTAAATGGTTTTATAATATCA

                        *              *        * *    
        480 TAATTGACTTTAGGTTGAATGTTTTTTTCATTTTTGGTGAAAA
        130 TAATTGA-TTTAAGTTGAAT-TTTTTTACATTTTT-ATTAAAA

            *                                *           *    *    ***       
        523 CAGATTATAATTGAATGTCTACCTCGA-AAAATATGAAGAAAAAGCCATTTATTGATGAGAAAAG
          1 TAGATTATAATTGAATGTCTACCTCGAGAAAA-GTGAAGAAAAAGACATTCATTGGCAAGAAAAG

              *             *        *    **         *            *          
        587 TCTATTTATACTCACCGATGCCTACGAAAGTTTTATTACTCGCTTTAAATGGTTGTATAATCA-C
         65 TCCATTTATACTCACCCATGCCTACAAAAGCCTTATTACTCACTTTAAATGGTTTTATAAT-ATC

                   
        651 ATAATTG
        129 ATAATTG

        658 NNNNNNNNNN


Statistics
Matches: 398,  Mismatches: 68, Indels: 21
        0.82            0.14        0.04

Matches are distributed among these distances:
 170  139  0.35
 171  148  0.37
 172  110  0.28
 173    1  0.00

ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38


Consensus pattern (169 bp):   
TAGATTATAATTGAATGTCTACCTCGAGAAAAGTGAAGAAAAAGACATTCATTGGCAAGAAAAGT
CCATTTATACTCACCCATGCCTACAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATATCAT
AATTGATTTAAGTTGAATTTTTTTACATTTTTATTAAAA
Done.