Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000765.1 Kokia drynarioides strain JFW-HI SEQ_111815, 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: 3231
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30


Found at i:1059 original size:18 final size:18

Alignment explanation


    Indices: 1036--1070  Score: 61
    Period size: 18  Copynumber: 1.9  Consensus size: 18

       1026 TTGAAAACAA

                      *       
       1036 CGTACTCCAAGAGTTGCC
          1 CGTACTCCAACAGTTGCC

                             
       1054 CGTACTCCAACAGTTGC
          1 CGTACTCCAACAGTTGC

       1071 AGTTTCACAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23


Consensus pattern (18 bp):   
CGTACTCCAACAGTTGCC

Found at i:2302 original size:168 final size:168

Alignment explanation


    Indices: 1998--2516  Score: 698
    Period size: 168  Copynumber: 3.1  Consensus size: 168

       1988 GAAGATGATG

                      **                                       *         *   
       1998 GTTGTCCTCCTGTCACCCCTGGCATTGGACATGGTCTGGACTCTGGAAGATAAACTATTTGAATG
          1 GTTGTCCTCCAATCACCCCTGGCATTGGACA-----TGG--TCTGGAAGATGAACTATTTGGATG

                                                              *              
       2063 ACCTGTAAAATTGAAGTCTAAGCCAGCC-GTGAGCTGGTCAACTGCTGATCGTTATTCATTGGTG
         59 ACCTGTAAAATTGAAGTCTAAGCCAGCCTGTGAGCTGGTCAACTGCTGATTGTTATTCATTGGTG

                                             *           
       2127 CTGAATTTGTATGCGGAGCTGATGCTTGAATCTATTGTGATGGAT
        124 CTGAATTTGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT

            *       *                                           *   *     *  
       2172 TTTGTCCTTCAATCACCCCTGGCATTGGACATGGTCTGGAAGATGAACTATTCGGACGACCTATA
          1 GTTGTCCTCCAATCACCCCTGGCATTGGACATGGTCTGGAAGATGAACTATTTGGATGACCTGTA

                *                  *                        *        *       
       2237 AAATAGAAGTCTAAGCCAGCCTGCGAGCTGGTCAACTGCTGATTGTTACTCATTGGTTCTGAATT
         66 AAATTGAAGTCTAAGCCAGCCTGTGAGCTGGTCAACTGCTGATTGTTATTCATTGGTGCTGAATT

                                    *             
       2302 TGTATGCGGAGCTGATGCTTGAATTTGTTGTGATGGAT
        131 TGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT

                      *           *         *    *       *       *           
       2340 GTTGTCCTCCTATCACCCCTGGTATTGGACATTGTCTAGAAGATGTACTATTTAGATGACCTGTA
          1 GTTGTCCTCCAATCACCCCTGGCATTGGACATGGTCTGGAAGATGAACTATTTGGATGACCTGTA

                          *         *            *            *   *    *    *
       2405 AAATTGAAGTCTAATCCAGCCTGTAAGCTGGTCAACTTCTGATTGTTATTTATTTGTGCCGAATA
         66 AAATTGAAGTCTAAGCCAGCCTGTGAGCTGGTCAACTGCTGATTGTTATTCATTGGTGCTGAATT

                   *                              
       2470 TGTATGCAGAGCTGATGCTTGAATCTGTTGTGATGGAT
        131 TGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT

                     
       2508 GTTGTCCTC
          1 GTTGTCCTC

       2517 TTATCCTTGA


Statistics
Matches: 304,  Mismatches: 40, Indels: 8
        0.86            0.11        0.02

Matches are distributed among these distances:
 167   46  0.15
 168  228  0.75
 169    3  0.01
 174   27  0.09

ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34


Consensus pattern (168 bp):   
GTTGTCCTCCAATCACCCCTGGCATTGGACATGGTCTGGAAGATGAACTATTTGGATGACCTGTA
AAATTGAAGTCTAAGCCAGCCTGTGAGCTGGTCAACTGCTGATTGTTATTCATTGGTGCTGAATT
TGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT
Done.