Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002301.1 Kokia drynarioides strain JFW-HI SEQ_114335, 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: 4320
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28


Found at i:2346 original size:15 final size:15

Alignment explanation


    Indices: 2319--2353  Score: 54
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       2309 GGCATCTTTT

                           
       2319 AAAAAAAAGGAAAAG
          1 AAAAAAAAGGAAAAG

                            
       2334 AAAATAAAA-GAAAAG
          1 AAAA-AAAAGGAAAAG

                 
       2349 AAAAA
          1 AAAAA

       2354 GGAAGAGAAA


Statistics
Matches: 19,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  14    1  0.05
  15   14  0.74
  16    4  0.21

ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03


Consensus pattern (15 bp):   
AAAAAAAAGGAAAAG

Found at i:3742 original size:112 final size:111

Alignment explanation


    Indices: 3580--3904  Score: 391
    Period size: 112  Copynumber: 2.9  Consensus size: 111

       3570 ATAGGTAAAT

                                           *        *    *                   
       3580 TTAATCCTTTTCATTCATACGAGCTTTGCCTAAAATAAAAGTCAAATTTATCCACCTTACAACCT
          1 TTAA-CCTTTTCATTCATACGAGCTTTGCCTCAAATAAAATTCAATTTTATCCACCTTACAACCT

                               *                            
       3645 GGTTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGATTC
         65 -GTTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATGATTC

                           *          *    *   *     **                      
       3693 TTAACCTTTTCATTCGTACGAGCTTTACCTCTAATGAAATTTTATTTTATCCACCTTACAACCAT
          1 TTAACCTTTTCATTCATACGAGCTTTGCCTCAAATAAAATTCAATTTTATCCACCTTACAACC-T

                     **    *           *  * *     *        
       3758 GTTCAAGCACGTTTGTATTGAAATAACAGTCACTGGACTAATGATTC
         65 GTTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATGATTC

                *           **     *       *                                 
       3805 TTAATCTTTTCATTCACGCGAGCCTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCCT
          1 TTAACCTTTTCATTCATACGAGCTTTGCCTCAAATAAAATTCAATTTTATCCACCTTACAA-CCT

                                *   *           
       3870 GTTCAAGCATTTTT-CATTGCAATGACGGTTAGTGG
         65 GTTCAAGCATTTTTGCATTGAAATAACGGTTAGTGG

       3905 TCTAAGAATA


Statistics
Matches: 175,  Mismatches: 35, Indels: 6
        0.81            0.16        0.03

Matches are distributed among these distances:
 111   15  0.09
 112  153  0.87
 113    7  0.04

ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36


Consensus pattern (111 bp):   
TTAACCTTTTCATTCATACGAGCTTTGCCTCAAATAAAATTCAATTTTATCCACCTTACAACCTG
TTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATGATTC
Done.