Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008154.1 Kokia drynarioides strain JFW-HI SEQ_122813, 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: 3837
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40


Found at i:1278 original size:14 final size:16

Alignment explanation


    Indices: 1261--1293  Score: 52
    Period size: 15  Copynumber: 2.2  Consensus size: 16

       1251 ATGTAATTTT

                            
       1261 TAAAA-ATTTAAAA-A
          1 TAAAATATTTAAAAGA

                            
       1275 TAAAATATTTAAAAGA
          1 TAAAATATTTAAAAGA

               
       1291 TAA
          1 TAA

       1294 TGTGAAAAAA


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  14    5  0.29
  15    8  0.47
  16    4  0.24

ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30


Consensus pattern (16 bp):   
TAAAATATTTAAAAGA

Found at i:1789 original size:10 final size:10

Alignment explanation


    Indices: 1753--1796  Score: 52
    Period size: 10  Copynumber: 4.4  Consensus size: 10

       1743 TATGCATAGG

                 *    
       1753 TAAATGAAAA
          1 TAAATAAAAA

                    * 
       1763 TAAATAAATA
          1 TAAATAAAAA

             **       
       1773 TGTATAAAAA
          1 TAAATAAAAA

                      
       1783 TAAATAAAAA
          1 TAAATAAAAA

                
       1793 TAAA
          1 TAAA

       1797 AATTTTATTT


Statistics
Matches: 27,  Mismatches: 7, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
  10   27  1.00

ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25


Consensus pattern (10 bp):   
TAAATAAAAA

Found at i:3044 original size:31 final size:30

Alignment explanation


    Indices: 3009--3083  Score: 96
    Period size: 31  Copynumber: 2.5  Consensus size: 30

       2999 TTACTATAAT

                       *       * *         
       3009 ATTTGATACTTGAACTTGATATTTTTTCTTA
          1 ATTTGATACTTAAACTTGACACTTTTT-TTA

                 *                        
       3040 ATTTGGTACTTAAACTTGACACTTTTTTTA
          1 ATTTGATACTTAAACTTGACACTTTTTTTA

             *            
       3070 AGTTGATACTTAAA
          1 ATTTGATACTTAAA

       3084 TTTTTTGGGG


Statistics
Matches: 38,  Mismatches: 6, Indels: 1
        0.84            0.13        0.02

Matches are distributed among these distances:
  30   15  0.39
  31   23  0.61

ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49


Consensus pattern (30 bp):   
ATTTGATACTTAAACTTGACACTTTTTTTA

Done.