Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018403168.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_835.0, 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, 913

Length: 1522
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.27

Warning! 373 characters in sequence are not A, C, G, or T


Found at i:1001 original size:170 final size:171

Alignment explanation


    Indices: 625--1003  Score: 447
    Period size: 170  Copynumber: 2.2  Consensus size: 171

        615 NNNNNNNNNN

                                                                             
        625 GGCTTTTGAAAGAATGAGTGAGTATAAATGGACTTTTCTTGCCAATGAATGCCTATTTCTTTACG
          1 GGCTTTTGAAAGAATGAGTGAGTATAAATGGACTTTTCTTGCCAATGAATGCCTATTTCTTTACG

                *                                                * **      * 
        690 TTTTTCAAAGTAAGCATTCAACAATAGTCTGTTTCAACCAAAAATGTAAAAAAGTTTAACTTAGA
         66 TTTTACAAAGTAAGCATTCAACAATAGTCTGTTTCAACCAAAAATGTAAAAAAATACAACTTAAA

              *      *  *       *                    
        755 ATTAATTATGAGTTTATAAAGCCATTTAAAGCGAGCAATAA
        131 ATCAATTATAAGATTATAAAACCATTTAAAGCGAGCAATAA

                   *           **********                      *           * 
        796 GGCTTTTAAAAGAATGAGTNNNNNNNNNNGGACTTTTCTTGCCAATGAATGTCT-TTTCTTTAGG
          1 GGCTTTTGAAAGAATGAGTGAGTATAAATGGACTTTTCTTGCCAATGAATGCCTATTTCTTTACG

                     *   **       **           *                             
        860 TTTCTAC-AGGTATTCATTCAATTATAGTCTGTTTGAACCAAAAATGTAAAAAAATACAACTTAA
         66 TTT-TACAAAGTAAGCATTCAACAATAGTCTGTTTCAACCAAAAATGTAAAAAAATACAACTTAA

                                         *      *     
        924 AATCAATTATAAGATTATAAAACCATTTACAGCGAGTAATAA
        130 AATCAATTATAAGATTATAAAACCATTTAAAGCGAGCAATAA

                          **                      
        966 GGCTTTTGAAAGAAAAAGTGAGTATAAATGGACTTTTC
          1 GGCTTTTGAAAGAATGAGTGAGTATAAATGGACTTTTC

       1004 AATACCTTTT


Statistics
Matches: 164,  Mismatches: 43, Indels: 3
        0.78            0.20        0.01

Matches are distributed among these distances:
 170  120  0.73
 171   44  0.27

ACGTcount: A:0.37, C:0.12, G:0.15, T:0.33


Consensus pattern (171 bp):   
GGCTTTTGAAAGAATGAGTGAGTATAAATGGACTTTTCTTGCCAATGAATGCCTATTTCTTTACG
TTTTACAAAGTAAGCATTCAACAATAGTCTGTTTCAACCAAAAATGTAAAAAAATACAACTTAAA
ATCAATTATAAGATTATAAAACCATTTAAAGCGAGCAATAA

Found at i:1341 original size:172 final size:171

Alignment explanation


    Indices: 1150--1522  Score: 457
    Period size: 172  Copynumber: 2.2  Consensus size: 171

       1140 TTACAAAGCC

                                                                             
       1150 ATTTAAAGCGAGTAATAAGACTTTTAAAGGA-ATGAGTGATAATAAATAAACTTTTCTTGT-C-A
          1 ATTTAAAGCGAGTAATAAGACTTTTAAAGGAGATG-GTGATAATAAATAAACTTTT-TT-TACTA

              *     *                  *  *     *             *             *
       1212 ATGAATGCCTTTTTCTTCACGTTTCTCGATGT-AGATATTCAATTATAATCTGTTTTAAACAAAC
         63 ATAAATGCATTTTTCTTCACGTTTCTCAATCTCA-ACATTCAATTATAATATGTTTTAAACAAAA

               *          *                               
       1276 AAGTAAAAGAAATTGAACTTAAAATCAATTTTGAGAGTATAAAACA
        127 AAGGAAAA-AAATTAAACTTAAAATCAATTTTGAGAGTATAAAACA

                                        *   *  *           **                
       1322 ATTTAAAGCGAGTAATAAGACTTTTAAAAGAGTTGTTGATAATAAATGGACTTTTTTTACTAATA
          1 ATTTAAAGCGAGTAATAAGACTTTTAAAGGAGATGGTGATAATAAATAAACTTTTTTTACTAATA

                            *                     *                *         
       1387 AATGCATTTTTCTTCATGTTTCTCAATCTCAACATTCAGTTATAATATGTTTTAACCAAAAAAGG
         66 AATGCATTTTTCTTCACGTTTCTCAATCTCAACATTCAATTATAATATGTTTTAAACAAAAAAGG

                        *              *   *        *
       1452 AAAAAAATTAAATTTAAAATCAATTTTTAGATTATAAAACC
        131 AAAAAAATTAAACTTAAAATCAATTTTGAGAGTATAAAACA

                   *           *     *    
       1493 ATTTAAATCGAGTAATAAGGCTTTTGAAGG
          1 ATTTAAAGCGAGTAATAAGACTTTTAAAGG


Statistics
Matches: 172,  Mismatches: 25, Indels: 9
        0.83            0.12        0.04

Matches are distributed among these distances:
 170    1  0.01
 171   61  0.35
 172  107  0.62
 173    3  0.02

ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36


Consensus pattern (171 bp):   
ATTTAAAGCGAGTAATAAGACTTTTAAAGGAGATGGTGATAATAAATAAACTTTTTTTACTAATA
AATGCATTTTTCTTCACGTTTCTCAATCTCAACATTCAATTATAATATGTTTTAAACAAAAAAGG
AAAAAAATTAAACTTAAAATCAATTTTGAGAGTATAAAACA
Done.