Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400054.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3273.0, 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: 5347
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.24

Warning! 2046 characters in sequence are not A, C, G, or T


Found at i:2995 original size:169 final size:171

Alignment explanation


    Indices: 2482--3001  Score: 437
    Period size: 171  Copynumber: 3.1  Consensus size: 171

       2472 NNNNNNNNNN

                                    *              *                *        
       2482 AAATAG-TTTATAATCTAATAATTGATTTTAAGT-TGAAATTTTTTACATTTTTCAATAAAAC-A
          1 AAATAGTTTTATAATCTAATAATTAATTTTAAGTCT-AATTTTTTTACATTTTTCATTAAAACTA

               *              *         * **     *            ** **          
       2544 GACTATAATTGAATGTCTGCCTTG-GCACACGTGAAGGAAAAAGCATTCATTGATAAGAAAAGTC
         65 GA-AATAATTGAATGTCTACCTTGAG-AAAAATGAAGAAAAAAGCATTCAACGGCAAGAAAAGTC

            *          * *    ***********   *       *    
       2608 CATTTATAGCCTCTCATTTNNNNNNNNNNCTTTTTACTC-GTTCT
        128 TATTTATAGCCACCCATTCCTTCAAAAGCCTTATTACTCACTT-T

                             *             *                               * 
       2652 AAATAGTTTTATAATCTCATAATTAATTTTAGGTCTAATTTTTTTACATTTTTCATTAAAACTGG
          1 AAATAGTTTTATAATCTAATAATTAATTTTAAGTCTAATTTTTTTACATTTTTCATTAAAACTAG

             *                        * *                  **  *             
       2717 ATATAATTGAATGTCTACCTTGAGAATAGTGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCTAT
         66 AAATAATTGAATGTCTACCTTGAGAAAAATGAAGAAAAAAGCATTCAACGGCAAGAAAAGTCTAT

                 * ** *               *        **    
       2782 TTATATCGTCTCATTCCTTCAAAAGCTTTATTACTTTCTTT
        131 TTATAGCCACCCATTCCTTCAAAAGCCTTATTACTCACTTT

                *        *                                        *          
       2823 AAATGGTTTTATACTCTAATAATTAATTTTAAGT-TAGA-TTTTTTACATTTTTTATTAAAAC-A
          1 AAATAGTTTTATAATCTAATAATTAATTTTAAGTCTA-ATTTTTTTACATTTTTCATTAAAACTA

                        *      *                 *     *                   * 
       2885 GACAATAATTGACTGTCTATCTTGAGAAAAATGAAGACAAAAGTATTCAACGGCAA-AAAAGTTT
         65 GA-AATAATTGAATGTCTACCTTGAGAAAAATGAAGAAAAAAGCATTCAACGGCAAGAAAAGTCT

                  *                                    
       2949 ATTTATGGCCACCCATTCCTTCAAAAGCCTTATTACTCACTTT
        129 ATTTATAGCCACCCATTCCTTCAAAAGCCTTATTACTCACTTT

                      
       2992 AAATAGTTTT
          1 AAATAGTTTT

       3002 CTAGTCTCNN


Statistics
Matches: 287,  Mismatches: 56, Indels: 15
        0.80            0.16        0.04

Matches are distributed among these distances:
 169   53  0.18
 170   73  0.25
 171  155  0.54
 172    6  0.02

ACGTcount: A:0.35, C:0.13, G:0.11, T:0.39


Consensus pattern (171 bp):   
AAATAGTTTTATAATCTAATAATTAATTTTAAGTCTAATTTTTTTACATTTTTCATTAAAACTAG
AAATAATTGAATGTCTACCTTGAGAAAAATGAAGAAAAAAGCATTCAACGGCAAGAAAAGTCTAT
TTATAGCCACCCATTCCTTCAAAAGCCTTATTACTCACTTT

Found at i:4726 original size:171 final size:172

Alignment explanation


    Indices: 4501--4902  Score: 403
    Period size: 171  Copynumber: 2.3  Consensus size: 172

       4491 TTCTAAATGA

                *            *  *                     *     *            * * 
       4501 TTTTATAATCTCATAATCAAATTTAAGTTCAA-TTTTTTTACCTTTTTCATTAAAACAGACTATA
          1 TTTTCTAATCTCATAATTAATTTTAAGTTCAATTTTTTTTACATTTTTTATTAAAACAGACAACA

                   **********                                        *       
       4565 ATTGAATNNNNNNNNNNAGAAAAGTGAAGAAAAAAGCATTCATTAGAAAGAAAAGTCTATTTATA
         66 ATTGAATATCAATCTTGAGAAAAGTGAAGAAAAAAGCATTCATTAGAAAGAAAAGTCCATTTATA

                                    *       *  *      
       4630 GCCTCACATTCCTTCAAAAGCCTTGTTACTCATTTTAAAAGG
        131 GCCTCACATTCCTTCAAAAGCCTTATTACTCACTTGAAAAGG

                       *                                            *        
       4672 TTTTCTAATCTAATAATTAATTTTAAGTT-AATTTTTTTTACATTTTTTATTAAAATAGACAACA
          1 TTTTCTAATCTCATAATTAATTTTAAGTTCAATTTTTTTTACATTTTTTATTAAAACAGACAACA

                 *                *       *             * *                **
       4736 ATTGACTATCAATCTTGAGAAACGTGAAGACAAAAGCATTCATTGGTAAGAAAAGTCCATTTANN
         66 ATTGAATATCAATCTTGAGAAAAGTGAAGAAAAAAGCATTCATTAGAAAGAAAAGTCCATTTATA

            ********                       *          
       4801 NNNNNNNNTTCCTTCAAAAGCCTTATTACTCGCTTGAAAAGG
        131 GCCTCACATTCCTTCAAAAGCCTTATTACTCACTTGAAAAGG

                 *            *          *           *                  
       4843 TTTTCAAATCTCATAATTGATTTTAAGTTGAATTTTTTTTATATTTTTTATTAAAACAGA
          1 TTTTCTAATCTCATAATTAATTTTAAGTTCAATTTTTTTTACATTTTTTATTAAAACAGA

       4903 NNNNNNNNNN


Statistics
Matches: 185,  Mismatches: 44, Indels: 3
        0.80            0.19        0.01

Matches are distributed among these distances:
 170    2  0.01
 171  155  0.84
 172   28  0.15

ACGTcount: A:0.36, C:0.12, G:0.09, T:0.38


Consensus pattern (172 bp):   
TTTTCTAATCTCATAATTAATTTTAAGTTCAATTTTTTTTACATTTTTTATTAAAACAGACAACA
ATTGAATATCAATCTTGAGAAAAGTGAAGAAAAAAGCATTCATTAGAAAGAAAAGTCCATTTATA
GCCTCACATTCCTTCAAAAGCCTTATTACTCACTTGAAAAGG
Done.