Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399720.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2965.0, 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: 2215
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.21

Warning! 948 characters in sequence are not A, C, G, or T


Found at i:1242 original size:172 final size:162

Alignment explanation


    Indices: 1052--1366  Score: 398
    Period size: 172  Copynumber: 1.9  Consensus size: 162

       1042 AATCGATTTC

                       *                         *          *                
       1052 TCTTGTCAATGTATGCCTTTTTCTTCATGTTTCTTGAGGTTGACATTCTATTATAATCTGTTTTA
          1 TCTTGTCAATGAATGCCTTTTTCTTCATGTTTCTTGACGTTGACATTCAATTATAATCTGTTTTA

              *                                *                             
       1117 ACTAAAAATGTACAAAGAACTCAAAT-TGAAATCAGTTTTGAGATTACAAAACCATTTAAAGTGA
         66 ACCAAAAATGTACAAAGAACTCAAATAT-AAATCAATTTTGAGATTACAAAACCATTTAAAGTGA

                 *                                     
       1181 GTAATGAGGCTTTTGAAGNNNNNNNNNNCTATTAATGGACTTT
        130 GTAATAAGGCTTTTGAAG----------CTATTAATGGACTTT

                                                                *      *    *
       1224 TCTTGTCAATGAATGCCTTTTTCTTCATGTTTCTTGACGTTGACATTCAATTTTAATCTTTTTTG
          1 TCTTGTCAATGAATGCCTTTTTCTTCATGTTTCTTGACGTTGACATTCAATTATAATCTGTTTTA

                 *     *       *        *                                    
       1289 ACCAACAATGTTCAAAGAATTCAAATATCAATCAATTTTGAGATTACAAAACCATTTAAAGTGAG
         66 ACCAAAAATGTACAAAGAACTCAAATATAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAG

              *          
       1354 TATTAAGGCTTTT
        131 TAATAAGGCTTTT

       1367 AAANNNNNNN


Statistics
Matches: 128,  Mismatches: 14, Indels: 2
        0.89            0.10        0.01

Matches are distributed among these distances:
 172  127  0.99
 173    1  0.01

ACGTcount: A:0.31, C:0.14, G:0.13, T:0.39


Consensus pattern (162 bp):   
TCTTGTCAATGAATGCCTTTTTCTTCATGTTTCTTGACGTTGACATTCAATTATAATCTGTTTTA
ACCAAAAATGTACAAAGAACTCAAATATAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAG
TAATAAGGCTTTTGAAGCTATTAATGGACTTT
Done.