Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018397584.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2503.0, 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: 6036
ACGTcount: A:0.26, C:0.10, G:0.09, T:0.26

Warning! 1719 characters in sequence are not A, C, G, or T


Found at i:5547 original size:81 final size:81

Alignment explanation


    Indices: 5407--5556  Score: 201
    Period size: 81  Copynumber: 1.9  Consensus size: 81

       5397 NNNAGAAACA

                                 *   * *         *      * *    *             
       5407 TGAAGAAAAAAGCATTCATTGGCAAGAGAAGTCCATTTATAGTCTTTCATTTCTGCAAAAGCCCT
          1 TGAAGAAAAAAGCATTCATTGACAAAAAAAGTCCATTCATAGTCATCCATTCCTGCAAAAGCCCT

                            
       5472 ATTAGAACATAAAATG
         66 ATTAGAACATAAAATG

                      *     *                                     *        * 
       5488 TGAAGAAAAAGGCATTTATTGACAAAAAAAGTCCATTCATAGTCATCCATTCCTTCAAAAGCCTT
          1 TGAAGAAAAAAGCATTCATTGACAAAAAAAGTCCATTCATAGTCATCCATTCCTGCAAAAGCCCT

                
       5553 ATTA
         66 ATTA

       5557 CTCACTTTAA


Statistics
Matches: 58,  Mismatches: 11, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  81   58  1.00

ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29


Consensus pattern (81 bp):   
TGAAGAAAAAAGCATTCATTGACAAAAAAAGTCCATTCATAGTCATCCATTCCTGCAAAAGCCCT
ATTAGAACATAAAATG

Found at i:5798 original size:172 final size:171

Alignment explanation


    Indices: 5577--6028  Score: 417
    Period size: 172  Copynumber: 2.6  Consensus size: 171

       5567 NNNNNNNNNN

                   *         * *        *              *           *         
       5577 AATCTCATAATTGATTTGAGGTTCAATTAT-TTTAACATTATTTGTTAAAACAGATTATAATTGA
          1 AATCTCAAAATTGATTTTAAGTTCAATTTTGTTTAAC-TT-TTGGTTAAAACAGAGTATAATTGA

                  *                          *              *********        
       5641 ATGTCTTCCTCAAGAAATATGAAGATAAAGGCATTCATTGGCAAGAANNNNNNNNNNT-TGGTCA
         64 ATGTCTACCTCAAGAAATATGAAGATAAAGGCAATCATTGGCAAGAA-AACTCTATTTATGGTCA

            * **   * *     *        *                   
       5705 TCTGTTCTTTCAAAAGCCTTAGTATTCACTTTAAATAGTTTTAT
        128 CCCATTCCTCCAAAAACCTTAGTACTCACTTTAAATAGTTTTAT

                                                                             
       5749 AATCTCAAAATTGATTTTAAGTTCAATTTTGTTTACACTTTTGGTTAAAACAGAGTATAATTGAA
          1 AATCTCAAAATTGATTTTAAGTTCAATTTTGTTTA-ACTTTTGGTTAAAACAGAGTATAATTGAA

             *        *      *           *********                           
       5814 TTTCTACCTCGAGAAATGTGAAGA-AAANNNNNNNNNNTGGCAAGAAAACTCTATTTATGGTCAC
         65 TGTCTACCTCAAGAAATATGAAGATAAA-GGCAATCATTGGCAAGAAAACTCTATTTATGGTCAC

                                *      *               
       5878 CCATTCCTCCAAAAACCTTATTACTCAGTTTAAATAGTTTTAT
        129 CCATTCCTCCAAAAACCTTAGTACTCACTTTAAATAGTTTTAT

                                *                *            *              
       5921 AATCTCAAAATTGATTTTAAATTCAATTTTGTTTATATTTTTGGTTAAAATAGAGTATAATTGAA
          1 AATCTCAAAATTGATTTTAAGTTCAATTTTGTTTA-ACTTTTGGTTAAAACAGAGTATAATTGAA

                       *    *      *                    
       5986 TGTCTACCTCATGAAACATGAA-CTAAAAGGCAATCATTGGCAA
         65 TGTCTACCTCAAGAAATATGAAGAT-AAAGGCAATCATTGGCAA

       6029 CAAAGGTC


Statistics
Matches: 218,  Mismatches: 56, Indels: 12
        0.76            0.20        0.04

Matches are distributed among these distances:
 171    4  0.02
 172  203  0.93
 173    9  0.04
 174    2  0.01

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


Consensus pattern (171 bp):   
AATCTCAAAATTGATTTTAAGTTCAATTTTGTTTAACTTTTGGTTAAAACAGAGTATAATTGAAT
GTCTACCTCAAGAAATATGAAGATAAAGGCAATCATTGGCAAGAAAACTCTATTTATGGTCACCC
ATTCCTCCAAAAACCTTAGTACTCACTTTAAATAGTTTTAT
Done.