Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398358.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1656.0, 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: 2702
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.26

Warning! 837 characters in sequence are not A, C, G, or T


Found at i:656 original size:172 final size:168

Alignment explanation


    Indices: 73--677  Score: 457
    Period size: 172  Copynumber: 3.5  Consensus size: 168

         63 AAACATGGAG

                           * *          *  *          *       *              
         73 AAAAAGCCATTCATTTGAAAGAAAAGTCCATCTATAGTCTCTTATTCCTTTAAAAGCCTTATTAC
          1 AAAAAGCCATTCATTGGCAAGAAAAGTCTATTTATAGTCTC-CATTCCTTCAAAAGCCTTATTAC

                               *                    *               * *      
        138 T-ATCTTTAAATGGTTTTACAATCTCATAATTGATTTTAAATTGAATATTTTTATATTTTTCA-T
         65 TCA-CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT-TTTTTA-AATCTT-AGT

                   * *            *   *  * *     *   * 
        201 TAAAATATACTATAATTGAATGCCTACCTCGGGAAACAT-ATA
        126 TAAAATAGATTATAATTGAATGTCTATCTAGAGAAACGTGAAA

                               *                                             
        243 AAAAAGCCATTCATTGAG-GAGAAAAGTCTATTTATTA-TCTCCCATTCCTTCAAAAGCCTTATT
          1 AAAAAGCCATTCATTG-GCAAGAAAAGTCTATTTA-TAGTCT-CCATTCCTTCAAAAGCCTTATT

                       **********  *                    *                    
        306 ACTCACTTTAANNNNNNNNNNAACCTCATAATTGATTTTAAGTTAAATTTTTTATAAATCTTTAG
         63 ACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTT-TAAATC-TTAG

               *                          *            *
        371 TTAGAATAGATTATAATTGAATGTCTATCTTGAGAAACGTGAAG
        125 TTAAAATAGATTATAATTGAATGTCTATCTAGAGAAACGTGAAA

                  *         *                       *   *******************  
        415 AAAAAGACATTCATTGACAAGAAAAGTCTATTTATAGTCACCCANNNNNNNNNNNNNNNNNNNAC
          1 AAAAAGCCATTCATTGGCAAGAAAAGTCTATTTATAGTC-TCCATTCCTTCAAAAGCCTTATTAC

                                                                *            
        480 TCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTCTTTGCAAATCTTAGGTT
         65 TCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATT-TTT-TAAATCTTA-GTT

                                  *            *      
        545 AAAATAGATTATAATTGAATGTTTATCTAGAGAAATGTGAAA
        127 AAAATAGATTATAATTGAATGTCTATCTAGAGAAACGTGAAA

                 *                                                   *       
        587 AAAAACCCATTCATTGGCAAGAAAAGT-TCATTTATAGTCATCCATTCCTTCAAAAGACTTATTA
          1 AAAAAGCCATTCATTGGCAAGAAAAGTCT-ATTTATAGTC-TCCATTCCTTCAAAAGCCTTATTA

                             *         
        651 CTCACTTTAAATGGTTTCATAATCTCA
         64 CTCACTTTAAATGGTTTTATAATCTCA

        678 AAATNNNNNN


Statistics
Matches: 323,  Mismatches: 97, Indels: 28
        0.72            0.22        0.06

Matches are distributed among these distances:
 170   89  0.28
 171   50  0.15
 172  184  0.57

ACGTcount: A:0.35, C:0.14, G:0.10, T:0.36


Consensus pattern (168 bp):   
AAAAAGCCATTCATTGGCAAGAAAAGTCTATTTATAGTCTCCATTCCTTCAAAAGCCTTATTACT
CACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTAAATCTTAGTTAAAA
TAGATTATAATTGAATGTCTATCTAGAGAAACGTGAAA

Found at i:1321 original size:171 final size:171

Alignment explanation


    Indices: 1020--1513  Score: 402
    Period size: 171  Copynumber: 2.9  Consensus size: 171

       1010 NNNAGCCAAC

                    *                          *  *  *        * *   *  *     
       1020 CATTGGCATGAAAAGTCCATTTATAGTCACTCAA-GCCTTCGAAAGCCTTTTTACTTACCTTAAA
          1 CATTGGCAAGAAAAGTCCATTTATAGTCAC-CAATACCATCAAAAGCCTTATAACTCACTTTAAA

                       *              *          *  *        * **********    
       1084 TAGTTTTATAAGCT-AATAATTGATTGTAAGTTGAATTTTTTTACATTTTTNNNNNNNNNNGACT
         65 TAGTTTTATAATCTCAA-AATTGATTTTAAGTTGAATATTCTTACATTTCTAGTTAAAACAGACT

                                      *             *   
       1148 ATAATTGAATGTCTACCTTGAGAAACGTGAAAGAAAAA-GTATT
        129 ATAATTGAATGTCTACCTTGAGAAACAT-AAAGAAAAAGGCATT

            *     **     *                 *     *        * **********       
       1191 TATTGGTGAGAAAGGTCCATTTATAGTCACCCATACCTTCAAAAGCGTNNNNNNNNNNTTTAAAT
          1 CATTGGCAAGAAAAGTCCATTTATAGTCACCAATACCATCAAAAGCCTTATAACTCACTTTAAAT

                            *           *          *              *          
       1256 -GATTTTATAATCTCATAATTGATTTTATGTTGAATATTTTTACATTTCTAGTTGAAACAGACTA
         66 AG-TTTTATAATCTCAAAATTGATTTTAAGTTGAATATTCTTACATTTCTAGTTAAAACAGACTA

                          ** **         *             
       1320 TAATTGAATGTCTAGATCAAGAAACATATAGAAAAAGGCATT
        130 TAATTGAATGTCTACCTTGAGAAACATAAAGAAAAAGGCATT

                             *                *         *                    
       1362 CATTGGCAAGAAAAGTCTATTTATAGTCACCAATTCCATCAAAATCCTTATAACTCACTTTAAAT
          1 CATTGGCAAGAAAAGTCCATTTATAGTCACCAATACCATCAAAAGCCTTATAACTCACTTTAAAT

                                                           * *         * *   
       1427 AGTTTTATAATCTCAAAATTGATTTTAAGTTGAATATTCTTACATTTTTTGTTAAAACAAATTAT
         66 AGTTTTATAATCTCAAAATTGATTTTAAGTTGAATATTCTTACATTTCTAGTTAAAACAGACTAT

                                  
       1492 AATTGAATGTCTACCTTGAGAA
        131 AATTGAATGTCTACCTTGAGAA

       1514 NNNNNNNNNN


Statistics
Matches: 243,  Mismatches: 75, Indels: 10
        0.74            0.23        0.03

Matches are distributed among these distances:
 170   11  0.05
 171  230  0.95
 172    2  0.01

ACGTcount: A:0.35, C:0.13, G:0.12, T:0.36


Consensus pattern (171 bp):   
CATTGGCAAGAAAAGTCCATTTATAGTCACCAATACCATCAAAAGCCTTATAACTCACTTTAAAT
AGTTTTATAATCTCAAAATTGATTTTAAGTTGAATATTCTTACATTTCTAGTTAAAACAGACTAT
AATTGAATGTCTACCTTGAGAAACATAAAGAAAAAGGCATT
Done.