Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014473.1 Kokia drynarioides strain JFW-HI SEQ_129512, 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: 25992
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34


Found at i:7200 original size:16 final size:17

Alignment explanation


    Indices: 7179--7210  Score: 57
    Period size: 16  Copynumber: 1.9  Consensus size: 17

       7169 AAAAAAATTC

                             
       7179 TTTTTTTT-CTTTTTCA
          1 TTTTTTTTCCTTTTTCA

                            
       7195 TTTTTTTTCCTTTTTC
          1 TTTTTTTTCCTTTTTC

       7211 TCAATTTTCT


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  16    8  0.53
  17    7  0.47

ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81


Consensus pattern (17 bp):   
TTTTTTTTCCTTTTTCA

Found at i:25286 original size:55 final size:55

Alignment explanation


    Indices: 25202--25444  Score: 380
    Period size: 55  Copynumber: 4.4  Consensus size: 55

      25192 GGGAGCAAGC

                    *                                          *   
      25202 TCAAAAGATGTAGTATTCCAACATAACAATCGATTTAAACATATAAACAATTGAT
          1 TCAAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATATAAACAATCGAT

                        *                                          
      25257 TCAAAAGAAGTACTATTCCAACATAACAATCGATTTAAACATATAAACAATCGAT
          1 TCAAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATATAAACAATCGAT

                                                               *   
      25312 TCAAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATATAAACAATTGAT
          1 TCAAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATATAAACAATCGAT

                      *             *     *                      *  
      25367 TCAAAAGAAGCAGTATTCCAACATGACAATTGATTTAAACATATCAAA-AATCAAT
          1 TCAAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATAT-AAACAATCGAT

             *        *            
      25422 TTAAAAGAAGCAGTATTCCAACA
          1 TCAAAAGAAGTAGTATTCCAACA

      25445 ATTAAGAAGA


Statistics
Matches: 176,  Mismatches: 11, Indels: 2
        0.93            0.06        0.01

Matches are distributed among these distances:
  55  173  0.98
  56    3  0.02

ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26


Consensus pattern (55 bp):   
TCAAAAGAAGTAGTATTCCAACATAACAATCGATTTAAACATATAAACAATCGAT

Found at i:25728 original size:6 final size:6

Alignment explanation


    Indices: 25688--25715  Score: 56
    Period size: 6  Copynumber: 4.7  Consensus size: 6

      25678 ACATCCATTA

                                            
      25688 CATTTC CATTTC CATTTC CATTTC CATT
          1 CATTTC CATTTC CATTTC CATTTC CATT

      25716 ATTATTTTCA


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   22  1.00

ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50


Consensus pattern (6 bp):   
CATTTC
Done.