Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402461.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5538.0, 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, 992

Length: 1654
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.31

Warning! 289 characters in sequence are not A, C, G, or T


Found at i:294 original size:171 final size:171

Alignment explanation


    Indices: 1--387  Score: 451
    Period size: 171  Copynumber: 2.3  Consensus size: 171

                      *                                  *       **          
          1 AAGAAAAACCCATTCATTTGCAAGAAAAGCCCATTTATAGTCACCTAAGCCTTGGAAAGCCTTAT
          1 AAGAAAAACCAATTCATTTGCAAGAAAAGCCCATTTATAGTCACCCAAGCCTTCAAAAGCCTTAT

                     *           *  *                  * *                   
         66 TACTCGCTTTAAATAGTTTTATAATCTCATAACTAATTGTAGCTTTAATTGTTTTACATTTTTAA
         66 TACTCGCTTGAAATAGTTTTACAAACTCATAACTAATTGTAGCATAAATTGTTTTACATTTTTAA

                                                     
        131 TTAAAACAGATTATAATTTAATATTTGTCTCGAAAAACATG
        131 TTAAAACAGATTATAATTTAATATTTGTCTCGAAAAACATG

                     *            *                                          
        172 AAGAAAAACTAATTCATTTGCAGGAAAAGCCCATTTATAGTCACCCAAGCCTTCAAAAGCCTTAT
          1 AAGAAAAACCAATTCATTTGCAAGAAAAGCCCATTTATAGTCACCCAAGCCTTCAAAAGCCTTAT

                *                *           * *   *   *                     
        237 TACTGGCTTGAAA-AGGTTTTGCAAACTCATAATTGATTTTAGGATAAATAT-TTTTACATTTTT
         66 TACTCGCTTGAAATA-GTTTTACAAACTCATAACTAATTGTAGCATAAAT-TGTTTTACATTTTT

             *        *         * * *     *  *          
        300 AGTTAAAACATATTATAATTGACTGTTTGTAT-TAAGAAACATG
        129 AATTAAAACAGATTATAATTTAATATTTGTCTCGAA-AAACATG

                    *      *      *                        
        343 AAGGAAAAGCC-ATTGA-TTGATAAGAAAAGCCCATTTATAGTCACC
          1 AA-GAAAAACCAATTCATTTG-CAAGAAAAGCCCATTTATAGTCACC

        388 NNNNNNNNNN


Statistics
Matches: 182,  Mismatches: 29, Indels: 10
        0.82            0.13        0.05

Matches are distributed among these distances:
 170    6  0.03
 171  169  0.93
 172    7  0.04

ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34


Consensus pattern (171 bp):   
AAGAAAAACCAATTCATTTGCAAGAAAAGCCCATTTATAGTCACCCAAGCCTTCAAAAGCCTTAT
TACTCGCTTGAAATAGTTTTACAAACTCATAACTAATTGTAGCATAAATTGTTTTACATTTTTAA
TTAAAACAGATTATAATTTAATATTTGTCTCGAAAAACATG

Found at i:821 original size:170 final size:172

Alignment explanation


    Indices: 500--861  Score: 455
    Period size: 170  Copynumber: 2.1  Consensus size: 172

        490 NNNNNNNNNN

                                                          **        *        
        500 TTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTTACATTTTTTGTTAAAACATATTGTAAT
          1 TTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTTACATTTTTCATTAAAACAGATTGTAAT

               *           *       *  *   *   *                 *  *         
        565 TGACTGTTTAGCTCAGGAAACGTGAAGAAAGACTTATTCATTGGTAAGAAAAGCCTATTTATAGT
         66 TGAATGTTTAGCTCAAGAAACGTAAAAAAAAACTCATTCATTGGTAAGAAAACCCCATTTATAGT

                *    *                        *     * 
        630 CACCTAAACTTTCAAAAGCCTTATTACTCACTTTTAATGGTT
        131 CACCCAAACCTTCAAAAGCCTTATTACTCACTTTAAATGGCT

                      *   *                                                  
        672 TTATAATCTCGTAACTGATTTTAGGTTG-ATTTTTTTTACATTTTTCATTAAAACAGATT-TAAT
          1 TTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTTACATTTTTCATTAAAACAGATTGTAAT

                                  *                      *  *                
        735 TGAATGTTT-GC-CATAAGAAATGTAAAAAAAAAACTCATTCATTTG-CAGAAAACCCCATTTAT
         66 TGAATGTTTAGCTC--AAGAAACGT-AAAAAAAAACTCATTCATTGGTAAGAAAACCCCATTTAT

                            **              *            
        797 AGTCACCCAAACCTTCGGAAGCCTTATTACTCGCTTTAAATGGCT
        128 AGTCACCCAAACCTTCAAAAGCCTTATTACTCACTTTAAATGGCT

                                
        842 TTATAATCTCATAATTGATT
          1 TTATAATCTCATAATTGATT

        862 NNNNNNNNNN


Statistics
Matches: 162,  Mismatches: 25, Indels: 8
        0.83            0.13        0.04

Matches are distributed among these distances:
 168    1  0.01
 169    2  0.01
 170   89  0.55
 171   44  0.27
 172   26  0.16

ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40


Consensus pattern (172 bp):   
TTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTTACATTTTTCATTAAAACAGATTGTAAT
TGAATGTTTAGCTCAAGAAACGTAAAAAAAAACTCATTCATTGGTAAGAAAACCCCATTTATAGT
CACCCAAACCTTCAAAAGCCTTATTACTCACTTTAAATGGCT
Done.