Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001369.1 Kokia drynarioides strain JFW-HI SEQ_112829, 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: 7350
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36


Found at i:4117 original size:119 final size:118

Alignment explanation


    Indices: 3985--4222  Score: 449
    Period size: 119  Copynumber: 2.0  Consensus size: 118

       3975 TTCTAAATAA

                                      *                                      
       3985 TAATAATAATAAATCTAATCAATCTTTATTTAGAAAAATAATTCAAAAATTCATTAGGAATTTTT
          1 TAATAATAATAAATCTAATCAATCTTCATTTAGAAAAATAATTCAAAAATTCATTAGGAATTTTT

                    *                                             
       4050 TAAAATTAGTTTTTTTTAAACAATTTCATTATAGGTTATCATATTTGTTCTTTT
         66 TAAAATTAATTTTTTTT-AACAATTTCATTATAGGTTATCATATTTGTTCTTTT

                                                                             
       4104 TAATAATAATAAATCTAATCAATCTTCATTTAGAAAAATAATTCAAAAATTCATTAGGAATTTTT
          1 TAATAATAATAAATCTAATCAATCTTCATTTAGAAAAATAATTCAAAAATTCATTAGGAATTTTT

                                                                 
       4169 TAAAATTAATTTTTTTTAACAATTTCATTATAGGTTATCATATTTGTTCTTTT
         66 TAAAATTAATTTTTTTTAACAATTTCATTATAGGTTATCATATTTGTTCTTTT

             
       4222 T
          1 T

       4223 GACATGATGC


Statistics
Matches: 117,  Mismatches: 2, Indels: 1
        0.98            0.02        0.01

Matches are distributed among these distances:
 118   37  0.32
 119   80  0.68

ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47


Consensus pattern (118 bp):   
TAATAATAATAAATCTAATCAATCTTCATTTAGAAAAATAATTCAAAAATTCATTAGGAATTTTT
TAAAATTAATTTTTTTTAACAATTTCATTATAGGTTATCATATTTGTTCTTTT

Found at i:4439 original size:22 final size:22

Alignment explanation


    Indices: 4414--4455  Score: 59
    Period size: 22  Copynumber: 1.9  Consensus size: 22

       4404 GATTAGAAAT

                                   
       4414 TTAACTGA-ATAATTAAAAACAA
          1 TTAACT-ATATAATTAAAAACAA

                          *     
       4436 TTAACTATATAATTTAAAAC
          1 TTAACTATATAATTAAAAAC

       4456 TTGGGATAAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  21    1  0.06
  22   17  0.94

ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33


Consensus pattern (22 bp):   
TTAACTATATAATTAAAAACAA
Done.