Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018403107.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_774.0, 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: 8631
ACGTcount: A:0.22, C:0.09, G:0.08, T:0.22

Warning! 3351 characters in sequence are not A, C, G, or T


Found at i:2433 original size:50 final size:50

Alignment explanation


    Indices: 2375--2472  Score: 133
    Period size: 50  Copynumber: 2.0  Consensus size: 50

       2365 ATTCATTGGC

                      *     *          *         *            
       2375 AAGAAAAGTCTATTTATAACCACCCATTCTGTCAAAAGCCTTATTACTTA
          1 AAGAAAAGTCCATTTACAACCACCCATACTGTCAAAAACCTTATTACTTA

                               *          * *               
       2425 AAGAAAAGTCCATTTACAATCACCCATACTTTTAAAAACCTTATTACT
          1 AAGAAAAGTCCATTTACAACCACCCATACTGTCAAAAACCTTATTACT

       2473 CACTTTAAGT


Statistics
Matches: 41,  Mismatches: 7, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  50   41  1.00

ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32


Consensus pattern (50 bp):   
AAGAAAAGTCCATTTACAACCACCCATACTGTCAAAAACCTTATTACTTA

Found at i:3749 original size:172 final size:170

Alignment explanation


    Indices: 3460--3876  Score: 498
    Period size: 172  Copynumber: 2.4  Consensus size: 170

       3450 AAACATGAAA

                                      **                                     
       3460 AAAAGTCCATTTATAGTCACCCATTCCGTCAAAAGCCTTATTACTCTCTTTAAATGGTTTTATAA
          1 AAAAGTCCATTTATAGTCACCCATTCTATCAAAAGCCTTATTACTC-CTTTAAATGGTTTTATAA

             *               *                     * **  *                   
       3525 TTTCATAATTGATTTCAGGTTGAATTCTGTTACATTTTTTGTTAATACAGATTATAATTGAATGT
         65 TCTCATAATTGATTTCAAGTTGAATTCTGTTACATTTTTAGCAAAAACAGATTATAATTGAATGT

                   *                              *     
       3590 CTGTCTTGGGAAACT-TGGAGAGAAAAAG-CATTCATTGGCAAG
        130 CTGTCTTAGGAAA-TGT-GA-AGAAAAAGCCATTCATTAGCAAG

                   *                    *                                    
       3632 AAAAGTCTATTTATAGTCACCCATTCTACCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
          1 AAAAGTCCATTTATAGTCACCCATTCTATCAAAAGCCTTATTACTC-CTTTAAATGGTTTTATAA

                   *                   * *                                   
       3697 TCTCATAGTTGACTTT-AAGTTGAATTTTTTTACATTTTTAGCAAAAACAGATTATAATTGAATG
         65 TCTCATAATTGA-TTTCAAGTTGAATTCTGTTACATTTTTAGCAAAAACAGATTATAATTGAATG

             *                  **                *   
       3761 TTTGTCTTAGGAAATGTGAATTAAAAGCCATTCATTAGTAAG
        129 TCTGTCTTAGGAAATGTGAAGAAAAAGCCATTCATTAGCAAG

                      *  * *        *  *  *     *         *      *           
       3803 AAAAGTCCATGTACACTCACCCATGCTTTCGAAAGCTTTATTACTCGTTTGAAGTGGTTTTATAA
          1 AAAAGTCCATTTATAGTCACCCATTCTATCAAAAGCCTTATTACTCCTTT-AAATGGTTTTATAA

                     
       3868 TCTCATAAT
         65 TCTCATAAT

       3877 NNNNNNNNNN


Statistics
Matches: 209,  Mismatches: 32, Indels: 9
        0.84            0.13        0.04

Matches are distributed among these distances:
 170    9  0.04
 171   73  0.35
 172  124  0.59
 173    3  0.01

ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38


Consensus pattern (170 bp):   
AAAAGTCCATTTATAGTCACCCATTCTATCAAAAGCCTTATTACTCCTTTAAATGGTTTTATAAT
CTCATAATTGATTTCAAGTTGAATTCTGTTACATTTTTAGCAAAAACAGATTATAATTGAATGTC
TGTCTTAGGAAATGTGAAGAAAAAGCCATTCATTAGCAAG

Done.