Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400638.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3827.0, 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: 2139
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.28

Warning! 615 characters in sequence are not A, C, G, or T


Found at i:1619 original size:171 final size:171

Alignment explanation


    Indices: 1327--2019  Score: 637
    Period size: 171  Copynumber: 4.1  Consensus size: 171

       1317 ATTTATTGTC

                *   *              *      *   *         *   *      *         
       1327 AAGCTTTAGTACTCGCTTTAAA-TGATTTTATAACCTCATAATTGATTTTAAGTTTAAC-TTTTT
          1 AAGCCTTATTACTCGCTTTAAACAG-TTTTTTAATCTCATAATTAATTCTAAGTTGAACTTTTTT

                 **                         *      *       * *               
       1390 ATATTTTTTATT-AAACAGATTATAATTGAATATCTACCATGAGAAATGGAAAGAAAAAGATATC
         65 ATATTGATTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTAAAGAAAAAGATATC

                                  *                   
       1454 CATT-GTAAGAAAAGTCTATTTGTAGTCACCCATGCCTTCGA
        130 CATTAGTAAGAAAAGTCTATTTATAGTCACCCATGCCTTCGA

                                              *         *                    
       1495 AAGCCTTATTACTCGCTTTAAACAGTTTTTTAATGTCATAATTAGTTCTAAGTTGAACTTTTTTA
          1 AAGCCTTATTACTCGCTTTAAACAGTTTTTTAATCTCATAATTAATTCTAAGTTGAACTTTTTTA

              *********              *                                       
       1560 TNNNNNNNNNNTAAAACAGATTATAGTTGAATGTCTACCTTGAGAAACGTAAAGAAAAAGATATC
         66 T-ATTGATTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTAAAGAAAAAGATATC

                *            *             *  *   *   
       1625 CATTCGTAAGAAAAGTCCATTTATAGTCACCTATACCTGCGA
        130 CATTAGTAAGAAAAGTCTATTTATAGTCACCCATGCCTTCGA

                                  *                        * **              
       1667 AAGCCTTATTACTCGCTTTAAATAGTTTTTTAATCTCATAATTAATTTTTTGTTGAACTTTTTTA
          1 AAGCCTTATTACTCGCTTTAAACAGTTTTTTAATCTCATAATTAATTCTAAGTTGAACTTTTTTA

                           *            *    *     *                         
       1732 TATTGATTATTAAAATAGATTATAATTGTATGTTTACCTCGAGAAACGTAAAGAAAAAGATATCC
         66 TATTGATTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTAAAGAAAAAGATATCC

                    *    *    *  *   *    *        * 
       1797 ATTAGTAAAAAAAATCTACTTCTAGACACCGATGCCTTCAA
        131 ATTAGTAAGAAAAGTCTATTTATAGTCACCCATGCCTTCGA

                                   *  *********         *   *   *    **      
       1838 AAGCCTTATTACTCGCTTTAAA-TGNNNNNNNNNNCTCATAATTGATTTTAATTTGAGTTTTTTT
          1 AAGCCTTATTACTCGCTTTAAACAG-TTTTTTAATCTCATAATTAATTCTAAGTTGAACTTTTTT

                  *            *              * *  *           *             
       1902 ATATT-TTTATTAAAACAGGTTATAATTGAATGTTTGCCCT-AGGAAACGTGAAGAAAAAGATAT
         65 ATATTGATTATTAAAACAGATTATAATTGAATGTCTACCTTGA-GAAACGTAAAGAAAAAGATAT

                *  *                                  * 
       1965 CCATCAGGAAGAAAAGT-TCATTTATAGTCACCCATGCCTTCAA
        129 CCATTAGTAAGAAAAGTCT-ATTTATAGTCACCCATGCCTTCGA

                *       
       2008 AAGCTTTATTAC
          1 AAGCCTTATTAC

       2020 NNNNNNNNNN


Statistics
Matches: 424,  Mismatches: 93, Indels: 14
        0.80            0.18        0.03

Matches are distributed among these distances:
 168   46  0.11
 169   10  0.02
 170   94  0.22
 171  182  0.43
 172   92  0.22

ACGTcount: A:0.35, C:0.14, G:0.12, T:0.36


Consensus pattern (171 bp):   
AAGCCTTATTACTCGCTTTAAACAGTTTTTTAATCTCATAATTAATTCTAAGTTGAACTTTTTTA
TATTGATTATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTAAAGAAAAAGATATCC
ATTAGTAAGAAAAGTCTATTTATAGTCACCCATGCCTTCGA

Done.