Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013627.1 Kokia drynarioides strain JFW-HI SEQ_128655, 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: 48758
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32

Warning! 27 characters in sequence are not A, C, G, or T


Found at i:6077 original size:2 final size:2

Alignment explanation


    Indices: 6070--6104  Score: 70
    Period size: 2  Copynumber: 17.5  Consensus size: 2

       6060 CTGTATATCT

                                                                
       6070 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
          1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T

       6105 TTTTACTGCT


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   33  1.00

ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51


Consensus pattern (2 bp):   
TC

Found at i:15069 original size:95 final size:95

Alignment explanation


    Indices: 14960--15150  Score: 382
    Period size: 95  Copynumber: 2.0  Consensus size: 95

      14950 ATTGAATGGC

                                                                             
      14960 TGGGCATATAATGGTGGAAAAGAAAGTGCAAGCATGATGAAGAGAAAATATATAATGGAGGAAGA
          1 TGGGCATATAATGGTGGAAAAGAAAGTGCAAGCATGATGAAGAGAAAATATATAATGGAGGAAGA

                                          
      15025 AATGGGGCAAAGAGTAAAACAAGTCTTTCT
         66 AATGGGGCAAAGAGTAAAACAAGTCTTTCT

                                                                             
      15055 TGGGCATATAATGGTGGAAAAGAAAGTGCAAGCATGATGAAGAGAAAATATATAATGGAGGAAGA
          1 TGGGCATATAATGGTGGAAAAGAAAGTGCAAGCATGATGAAGAGAAAATATATAATGGAGGAAGA

                                          
      15120 AATGGGGCAAAGAGTAAAACAAGTCTTTCT
         66 AATGGGGCAAAGAGTAAAACAAGTCTTTCT

             
      15150 T
          1 T

      15151 TTTTTTATTT


Statistics
Matches: 96,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  95   96  1.00

ACGTcount: A:0.44, C:0.07, G:0.28, T:0.20


Consensus pattern (95 bp):   
TGGGCATATAATGGTGGAAAAGAAAGTGCAAGCATGATGAAGAGAAAATATATAATGGAGGAAGA
AATGGGGCAAAGAGTAAAACAAGTCTTTCT

Found at i:31851 original size:59 final size:59

Alignment explanation


    Indices: 31759--31876  Score: 236
    Period size: 59  Copynumber: 2.0  Consensus size: 59

      31749 AGTAAGGGAG

                                                                       
      31759 ACTGTTTCCCTTCTGCACCACTTTAAGCTTTTGATTTGGCAGTTAGTTACTTTTACCCC
          1 ACTGTTTCCCTTCTGCACCACTTTAAGCTTTTGATTTGGCAGTTAGTTACTTTTACCCC

                                                                       
      31818 ACTGTTTCCCTTCTGCACCACTTTAAGCTTTTGATTTGGCAGTTAGTTACTTTTACCCC
          1 ACTGTTTCCCTTCTGCACCACTTTAAGCTTTTGATTTGGCAGTTAGTTACTTTTACCCC

      31877 TCAACAATGT


Statistics
Matches: 59,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  59   59  1.00

ACGTcount: A:0.17, C:0.27, G:0.14, T:0.42


Consensus pattern (59 bp):   
ACTGTTTCCCTTCTGCACCACTTTAAGCTTTTGATTTGGCAGTTAGTTACTTTTACCCC

Found at i:36980 original size:23 final size:23

Alignment explanation


    Indices: 36922--36965  Score: 88
    Period size: 23  Copynumber: 1.9  Consensus size: 23

      36912 AGATTTTGAT

                                   
      36922 GAATCAAACTGTTTAAGGCTTAG
          1 GAATCAAACTGTTTAAGGCTTAG

                                 
      36945 GAATCAAACTGTTTAAGGCTT
          1 GAATCAAACTGTTTAAGGCTT

      36966 TGGTAGTAAT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  23   21  1.00

ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32


Consensus pattern (23 bp):   
GAATCAAACTGTTTAAGGCTTAG
Done.