Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018403123.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_791.0, 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: 6153
ACGTcount: A:0.19, C:0.08, G:0.07, T:0.19

Warning! 2911 characters in sequence are not A, C, G, or T


Found at i:1662 original size:170 final size:172

Alignment explanation


    Indices: 1316--1756  Score: 435
    Period size: 170  Copynumber: 2.6  Consensus size: 172

       1306 NNNNNNNNNN

                             *                    *    *         *           
       1316 TATAATTGAATGTCAACGTCAAGAAACATGAAGGAAAATGTATTCATTGGCAAGAAAAGTCCATT
          1 TATAATTGAATGTCAACCTCAAGAAACATGAAGGAAAAAGTATGCATTGGCAACAAAAGTCCATT

                             *     *                                       * 
       1381 AGTAGTCACCCATTCCTTCAAAATACTTATTACATACTTTAAATGGTTTTATAATATCAAAATTG
         66 AGTAGTCACCCATTCCTCCAAAAGACTTATTACATACTTTAAATGGTTTTATAATATCAAAATCG

               *                   *  *  ** *    * *  
       1446 ATTTAAATTTGAATTATTAGCACCTTTTTGGTTAAAACATAT
        131 ATTGAAATTTGAATTATTAGCACATTGTTCATAAAAAAAGAT

                         *      *     *              *      * *              
       1488 TATAATTGAATGTTAACCTCCAGAAATATGAA-GAAAAAG-GTGCATTTGTAACAAAAGTCCATT
          1 TATAATTGAATGTCAACCTCAAGAAACATGAAGGAAAAAGTATGCATTGGCAACAAAAGTCCA-T

                                     *                          *            
       1551 TA-TAGTCACCCATTCCTCCAAAAGCCTTATTAC-TGACTTTAAATGGTTTTGTAATATCAAAAT
         65 TAGTAGTCACCCATTCCTCCAAAAGACTTATTACAT-ACTTTAAATGGTTTTATAATATCAAAAT

                  *          *  * *                     
       1614 CGATTGCAATTTGAATTCTTTGTACATTGTTCATAAAAAAAGAT
        129 CGATTGAAATTTGAATTATTAGCACATTGTTCATAAAAAAAGAT

                   *    *               *   *   *     *  *         *        *
       1658 TATAATTCAATGCCAACCTTCAA-AAACGTGACGG-TAAAGACATTCATTGGCAAGAAAAGTCCT
          1 TATAATTGAATGTCAACC-TCAAGAAACATGAAGGAAAAAG-TATGCATTGGCAACAAAAGTCCA

               *       *         *     *        
       1721 TTAATAGTCACACATTCCTTCAAAAAGCCTTATTAC
         64 TTAGTAGTCACCCATTCC-TCCAAAAGACTTATTAC

       1757 TCCCTTTACT


Statistics
Matches: 218,  Mismatches: 43, Indels: 15
        0.79            0.16        0.05

Matches are distributed among these distances:
 169    1  0.00
 170  128  0.59
 171   16  0.07
 172   57  0.26
 173   16  0.07

ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33


Consensus pattern (172 bp):   
TATAATTGAATGTCAACCTCAAGAAACATGAAGGAAAAAGTATGCATTGGCAACAAAAGTCCATT
AGTAGTCACCCATTCCTCCAAAAGACTTATTACATACTTTAAATGGTTTTATAATATCAAAATCG
ATTGAAATTTGAATTATTAGCACATTGTTCATAAAAAAAGAT

Found at i:4406 original size:172 final size:171

Alignment explanation


    Indices: 3869--4446  Score: 562
    Period size: 172  Copynumber: 3.4  Consensus size: 171

       3859 NNNNNNNNNN

                         *            *                           *      *   
       3869 AAAAGTCCATTTACAGTCACCCATTCCTCAAAAAGCCTTATTACTCACTTTAAACGGTTTTGTAA
          1 AAAAGTCCATTTATAGTCACCCATTCTTCAAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA

                          *                                              *   
       3934 TCTCAAAATTGATTGAAACTTGAATTCTTTGTACATTTTTTATTAAAAAAGATTAT-ATCTCAAT
         66 TCTCAAAATTGATTTAAACTTGAATTCTTTGTACATTTTTTATTAAAAAAGATTATGAT-TGAAT

                             *    **          *         
       3998 GTCAACCTCAAGAAATGTGAAGGTAAAGGCA-AGGATTGGCAAG
        130 GTC-ACCTCAAGAAATGAGAAGAAAAAGGCATA-CATTGGCAAG

                       *        *         *                *     *           
       4041 AAAAGTCCATTAATAGTCACGCATTCCTTCGAAAAGCCTTATTACTCGCTTTACATGGTTTTATA
          1 AAAAGTCCATTTATAGTCACCCATT-CTTCAAAAAGCCTTATTACTCACTTTAAATGGTTTTATA

                   *         *  *     *                 *      *   *     *  *
       4106 ATGC-CATAATTGATTTGAAGTTGAGCTT-TTT-TACATTTTTTGTTAAAATAGACTA-GAATGT
         65 AT-CTCAAAATTGATTTAAACTTGA-ATTCTTTGTACATTTTTTATTAAAAAAGATTATGATTGA

                      **     *     *           * *    *   
       4167 ATGTCTACCTTGAGAAACGTA-ATGAAAAAGGCATTCGTTGGTAAG
        128 ATGTC-ACCTCAAGAAATG-AGAAGAAAAAGGCATACATTGGCAAG

                    *                            *  *                *       
       4212 AAAAGTCCTTTTATAGTCACCCATTTCTTC-AAAAGCATTTTTACTCACTTTAAATGATTTTATA
          1 AAAAGTCCATTTATAGTCACCCA-TTCTTCAAAAAGCCTTATTACTCACTTTAAATGGTTTTATA

                       **      *                       *     *               
       4276 ATCTCAAAATTCTTTTAAATTTGAATTCTTTGTACATTTTTTAATAAAACAGATTATGATTGAAT
         65 ATCTCAAAATTGATTTAAACTTGAATTCTTTGTACATTTTTTATTAAAAAAGATTATGATTGAAT

             *                                  *      
       4341 GACAGCCTCAAGAAATGAGAAGAAAAAGGCATACATCGGCAAG
        130 GTCA-CCTCAAGAAATGAGAAGAAAAAGGCATACATTGGCAAG

                * * *      *                       *       *                
       4384 AAAAATTCGTTTATAATCACCCATTCATTC-AAAAGCCTCATTACTCGCTTTAAATGGTTTTAT
          1 AAAAGTCCATTTATAGTCACCCATTC-TTCAAAAAGCCTTATTACTCACTTTAAATGGTTTTAT

       4447 GATGCCATAA


Statistics
Matches: 322,  Mismatches: 70, Indels: 28
        0.77            0.17        0.07

Matches are distributed among these distances:
 169    3  0.01
 170   49  0.15
 171   81  0.25
 172  132  0.41
 173   54  0.17
 174    3  0.01

ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35


Consensus pattern (171 bp):   
AAAAGTCCATTTATAGTCACCCATTCTTCAAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
TCTCAAAATTGATTTAAACTTGAATTCTTTGTACATTTTTTATTAAAAAAGATTATGATTGAATG
TCACCTCAAGAAATGAGAAGAAAAAGGCATACATTGGCAAG
Done.