Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398661.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1946.0, 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: 2035
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.18

Warning! 988 characters in sequence are not A, C, G, or T


Found at i:919 original size:111 final size:111

Alignment explanation


    Indices: 720--924  Score: 297
    Period size: 111  Copynumber: 1.8  Consensus size: 111

        710 NNNNNNNNNN

                  *       *    *                                  *          
        720 ATGAATGTCTTTTTTTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTGTTTTAACCAAAAA
          1 ATGAATATCTTTTTCTTCACGTTTCTTGAGGCAGACATTCAATTATAATCTGTTCTAACCAAAAA

                  * *  *                                  
        785 TGTATATAGAATTCAAATCAAAATCAATTTTAGACTTTTCTTGTCA
         66 TGTATAAAAAAATCAAATCAAAATCAATTTTAGACTTTTCTTGTCA

                                            *                                
        831 ATGAATATCTTTTTCTTCACGTTTCTT-AGGGTAGACATTCAATTATAATCTGTTCTAACCAAAA
          1 ATGAATATCTTTTTCTTCACGTTTCTTGA-GGCAGACATTCAATTATAATCTGTTCTAACCAAAA

                           *               
        895 ATGTA-AAAAAAATCCAATCTAAAATCAATT
         65 ATGTATAAAAAAATCAAATC-AAAATCAATT

        925 ATGAGATTAT


Statistics
Matches: 83,  Mismatches: 9, Indels: 4
        0.86            0.09        0.04

Matches are distributed among these distances:
 110   11  0.13
 111   72  0.87

ACGTcount: A:0.36, C:0.15, G:0.10, T:0.40


Consensus pattern (111 bp):   
ATGAATATCTTTTTCTTCACGTTTCTTGAGGCAGACATTCAATTATAATCTGTTCTAACCAAAAA
TGTATAAAAAAATCAAATCAAAATCAATTTTAGACTTTTCTTGTCA

Found at i:1170 original size:173 final size:170

Alignment explanation


    Indices: 817--1394  Score: 528
    Period size: 169  Copynumber: 3.4  Consensus size: 170

        807 ATCAATTTTA

                       *        **           *       *    *                  
        817 GACTTTTCTTGTCAATGAATATCTTTTTCTTCACGTTTCT-TAGG-GTAGACATTCAATTATAAT
          1 GACTTTTCTTGCCAATGAATGCCTTTTT-TTCAAGTTTCTCAAGGAATA-ACATTCAATTATAAT

              *       *      *          *   *          *            *********
        880 CTGTTCTAACCAAAAATGTAAAAAAAATCCAATCTAAAATCAATTATGAGATTATANNNNNNNNN
         64 CTATTCTAACAAAAAATAT-AAAAAAATTCAACCTAAAATCAACTATGAGATTATAAAACCATTT

            * * *         *      *       *      *       
        945 NATGTGAGTAATAAGGCTTTTGAAGGAACGGGTGACAATAAATG
        128 AAAGCGAGTAATAAAGCTTTTAAAGGAA-TGGTGACTATAAATG

             *                  *                  *                         
        989 GGCTTTTCTTGCCAATGAATACCTTTTTCTTCAAGTTTCCCAAGGAAT-ACA-TCTAATTA-ATA
          1 GACTTTTCTTGCCAATGAATGCCTTTTT-TTCAAGTTTCTCAAGGAATAACATTC-AATTATA-A

                               *            *                       *        
       1051 TCTATTCTAA-AGAAAAATGTAAAAAAAATTTGAACCTAAAATCAACTATGAGATTTTAAAACCA
         63 TCTATTCTAACA-AAAAATAT-AAAAAAA-TTCAACCTAAAATCAACTATGAGATTATAAAACCA

                                                           
       1115 TTTAAAGCGAGTAATAAAGCTTTTAAAGGAATAGGTGACTATAAATG
        125 TTTAAAGCGAGTAATAAAGCTTTTAAAGGAAT-GGTGACTATAAATG

            *          *       *            *    * **    *                   
       1162 AACTTTTCTTGTCAATGAAGGCC-TTTTTTCATGTTTTTTGA-GATTAACATTCAATTATAATCT
          1 GACTTTTCTTGCCAATGAATGCCTTTTTTTCAAGTTTCTCAAGGAATAACATTCAATTATAATCT

               *               *                    *           *            
       1225 ATTTTAACAAAAAATATAACAAAATTCAACCTAAAATCAATTATGAGATTATGAAACCATTTAAA
         66 ATTCTAACAAAAAATATAAAAAAATTCAACCTAAAATCAACTATGAGATTATAAAACCATTTAAA

              *  *                                 * 
       1290 GCAAGCAATAAAGCTTTTAAAGGAATGAGTGACTATAAAAG
        131 GCGAGTAATAAAGCTTTTAAAGGAATG-GTGACTATAAATG

                                                                             
       1331 GACTTTTCTTGCCAATGAATGCCTTTTTTTCAAGTTTCTCAA-G-ATAGACATTCAATTATAATC
          1 GACTTTTCTTGCCAATGAATGCCTTTTTTTCAAGTTTCTCAAGGAATA-ACATTCAATTATAATC

             
       1394 T
         65 T

       1395 GTTTTAANNN


Statistics
Matches: 333,  Mismatches: 59, Indels: 30
        0.79            0.14        0.07

Matches are distributed among these distances:
 168    1  0.00
 169   95  0.29
 170   41  0.12
 171   37  0.11
 172   77  0.23
 173   81  0.24
 174    1  0.00

ACGTcount: A:0.38, C:0.13, G:0.13, T:0.34


Consensus pattern (170 bp):   
GACTTTTCTTGCCAATGAATGCCTTTTTTTCAAGTTTCTCAAGGAATAACATTCAATTATAATCT
ATTCTAACAAAAAATATAAAAAAATTCAACCTAAAATCAACTATGAGATTATAAAACCATTTAAA
GCGAGTAATAAAGCTTTTAAAGGAATGGTGACTATAAATG

Done.