Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402067.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5164.0, 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: 2686
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.27

Warning! 574 characters in sequence are not A, C, G, or T


Found at i:1836 original size:170 final size:171

Alignment explanation


    Indices: 1655--2021  Score: 416
    Period size: 170  Copynumber: 2.2  Consensus size: 171

       1645 NNNNNNNAAG

                *              *                     *                       
       1655 GAATAGGTGACTATAAATGAACTTTTCTT-GCCATTGAATATATTTTTCTTCAAGTTTCCAAAGG
          1 GAATGGGTGACTATAAATGGACTTTTCTTAGCCA-TGAATACATTTTTCTTCAAGTTTCCAAAGG

              *               * *        *             **    *               
       1719 CAGACATTCAATTATAATTTGTTCTAAC-CAAAACATCAAAAAGTTCAACCT-AAAATCAATTAT
         65 CAAACATTCAATTATAATCTATTCTAACTAAAAACAT-AAAAAAATCAAACTAAAAATCAATTAT

                    *           *  *                   
       1782 GAGACTATCAAACCATTTAACGTGAGTAATAAGGCCTTCAAAA
        129 GAGACTATAAAACCATTTAAAGTAAGTAATAAGGCCTTCAAAA

                                  *       ***        *     *    *      *    *
       1825 GAATGGGTGACTATAAATGGACCTTTCTTATTGATGAATACCTTTTTTTTCACGTTTCCCAAGGT
          1 GAATGGGTGACTATAAATGGACTTTTCTTAGCCATGAATACATTTTTCTTCAAGTTTCCAAAGGC

                                              *                              
       1890 AAACATTCAATTATAATCTATTCTAACTAAAAACGTAAAAAAATCAAACTAAAAATCAATTATGA
         66 AAACATTCAATTATAATCTATTCTAACTAAAAACATAAAAAAATCAAACTAAAAATCAATTATGA

              *        *                     *  **  *
       1955 GATTATAAAACTATTTAAAGTAAGTAATAAGGCTTTTGAAG
        131 GACTATAAAACCATTTAAAGTAAGTAATAAGGCCTTCAAAA

                 *  *                 
       1996 GAATGAGTAACTATAAATGGACTTTT
          1 GAATGGGTGACTATAAATGGACTTTT

       2022 TTTTCCAATG


Statistics
Matches: 162,  Mismatches: 32, Indels: 5
        0.81            0.16        0.03

Matches are distributed among these distances:
 170   86  0.53
 171   76  0.47

ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33


Consensus pattern (171 bp):   
GAATGGGTGACTATAAATGGACTTTTCTTAGCCATGAATACATTTTTCTTCAAGTTTCCAAAGGC
AAACATTCAATTATAATCTATTCTAACTAAAAACATAAAAAAATCAAACTAAAAATCAATTATGA
GACTATAAAACCATTTAAAGTAAGTAATAAGGCCTTCAAAA

Found at i:2013 original size:171 final size:169

Alignment explanation


    Indices: 1697--2093  Score: 429
    Period size: 171  Copynumber: 2.3  Consensus size: 169

       1687 ATTGAATATA

                 *    *      *    *                 * *       *             *
       1697 TTTTTCTTCAAGTTTCCAAAGGCAGACATTCAATTATAATTTGTTCTAACCAAAACATCAAAAAG
          1 TTTTTTTTCACGTTTCCCAAGGTAGACATTCAATTATAATCTATTCTAACAAAAACATCAAAAAA

            *    *                      *           *  *                     
       1762 TTCAACCTAAAATCAATTATGAGACTATCAAACCATTTAACGTGAGTAATAAGGCCTTCAAAAGA
         66 ATCAAACTAAAATCAATTATGAGACTATAAAACCATTTAAAGTAAGTAATAAGGCCTTCAAAAGA

               *  *                        *         
       1827 ATGGGTGACTATAAATGGACCTTTCTTATT-GATGAATACC
        131 ATGAGTAACTATAAATGGA-CTTT-TTATTCAATGAATACC

                                    *                                *       
       1867 TTTTTTTTCACGTTTCCCAAGGTAAACATTCAATTATAATCTATTCTAACTAAAAACGT-AAAAA
          1 TTTTTTTTCACGTTTCCCAAGGTAGACATTCAATTATAATCTATTCTAAC-AAAAACATCAAAAA

                                      *        *                     *  **  *
       1931 AATCAAACTAAAAATCAATTATGAGATTATAAAACTATTTAAAGTAAGTAATAAGGCTTTTGAAG
         65 AATCAAACT-AAAATCAATTATGAGACTATAAAACCATTTAAAGTAAGTAATAAGGCCTTCAAAA

                                       *           * *
       1996 GAATGAGTAACTATAAATGGACTTTTTTTTCCAATGAATGCT
        129 GAATGAGTAACTATAAATGGACTTTTTATT-CAATGAATACC

                       *   ** *                *         *          
       2038 TTTTTTTTCACATTTGTCGAGGTAGACATTCAATTGTAATCTATTTTAAACAAAAA
          1 TTTTTTTTCACGTTTCCCAAGGTAGACATTCAATTATAATCTATTCT-AACAAAAA

       2094 TGTACAAAGA


Statistics
Matches: 188,  Mismatches: 34, Indels: 9
        0.81            0.15        0.04

Matches are distributed among these distances:
 169    4  0.02
 170   58  0.31
 171  123  0.65
 172    3  0.02

ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35


Consensus pattern (169 bp):   
TTTTTTTTCACGTTTCCCAAGGTAGACATTCAATTATAATCTATTCTAACAAAAACATCAAAAAA
ATCAAACTAAAATCAATTATGAGACTATAAAACCATTTAAAGTAAGTAATAAGGCCTTCAAAAGA
ATGAGTAACTATAAATGGACTTTTTATTCAATGAATACC
Done.