Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold815

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: 4629
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33


Found at i:1293 original size:19 final size:19

Alignment explanation


    Indices: 1269--1334  Score: 79
    Period size: 19  Copynumber: 3.7  Consensus size: 19

       1259 GAAGTAACAG

                            *  
       1269 GTATCGATACATAAGTTTT
          1 GTATCGATACATAAGTATT

                         *     
       1288 GTATCGAT-CA-ATGTA--
          1 GTATCGATACATAAGTATT

                               
       1303 G-ATCGATACATAAGTATT
          1 GTATCGATACATAAGTATT

                          
       1321 GTATCGATACATAA
          1 GTATCGATACATAA

       1335 TTAAGCTACT


Statistics
Matches: 39,  Mismatches: 3, Indels: 10
        0.75            0.06        0.19

Matches are distributed among these distances:
  14    6  0.15
  15    3  0.08
  16    4  0.10
  17    3  0.08
  18    3  0.08
  19   20  0.51

ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35


Consensus pattern (19 bp):   
GTATCGATACATAAGTATT

Found at i:3989 original size:48 final size:48

Alignment explanation


    Indices: 3921--4084  Score: 150
    Period size: 50  Copynumber: 3.3  Consensus size: 48

       3911 TTATTTTTGA

                           *       *         *              
       3921 GGGGATACTCCAACCCGGTTTATGCTAAAACACTAATTTTTCACAATC
          1 GGGGATACTCCAACCTGGTTTATTCTAAAACACCAATTTTTCACAATC

                                     * *    *        *  **    
       3969 GGGGATACTCCAACCTGGTTTTATTTTCAAACGCCAATTTTCCTTTAATC
          1 GGGGATACTCCAACCTGG-TTTATTCTAAAACACCAATTTTTC-ACAATC

                    *          *        *    *                 
       4019 GGGGATACGCCAA-CTCGATTTTATTTCCAAAATACCAATTTTTCACAATC
          1 GGGGATACTCCAACCT-G-GTTTA-TTCTAAAACACCAATTTTTCACAATC

             *              
       4069 GAGGATACTCCAACCT
          1 GGGGATACTCCAACCT

       4085 CGTTATTTCA


Statistics
Matches: 89,  Mismatches: 21, Indels: 9
        0.75            0.18        0.08

Matches are distributed among these distances:
  48   17  0.19
  49   20  0.22
  50   36  0.40
  51   16  0.18

ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32


Consensus pattern (48 bp):   
GGGGATACTCCAACCTGGTTTATTCTAAAACACCAATTTTTCACAATC

Done.