Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007201.1 Kokia drynarioides strain JFW-HI SEQ_121815, 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: 6253
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34


Found at i:2996 original size:152 final size:152

Alignment explanation


    Indices: 2720--3026  Score: 553
    Period size: 152  Copynumber: 2.0  Consensus size: 152

       2710 ATAGTAAAAT

                                                                             
       2720 AAACAACTCTTTTCTTAACAAGTGAACGACTTTAGAACTCATTAAAATAAGAGTAAACTCATAAC
          1 AAACAACTCTTTTCTTAACAAGTGAACGACTTTAGAACTCATTAAAATAAGAGTAAACTCATAAC

                  *                                                          
       2785 ACATAATTAATCTCAGGTTCAATTGAGTTCTGTAATAGATCAACAATTTAGTTAATATATATCAG
         66 ACATAACTAATCTCAGGTTCAATTGAGTTCTGTAATAGATCAACAATTTAGTTAATATATATCAG

                                   
       2850 AATGTT-AGTAAATGTTCTAGAA
        131 AATGTTGA-TAAATGTTCTAGAA

                                                             *               
       2872 AAACAACTCTTTTCTTAACAAGTGAACGACTTTAGAACTCATTAAAATAGGAGTAAACTCATAAC
          1 AAACAACTCTTTTCTTAACAAGTGAACGACTTTAGAACTCATTAAAATAAGAGTAAACTCATAAC

                           *                 *                               
       2937 ACATAACTAATCTCATGTTCAATTGAGTTCTGTGATAGATCAACAATTTAGTTAATATATATCAG
         66 ACATAACTAATCTCAGGTTCAATTGAGTTCTGTAATAGATCAACAATTTAGTTAATATATATCAG

                       *          
       3002 AATGTTGATAAGTGTTCTAGAA
        131 AATGTTGATAAATGTTCTAGAA

               
       3024 AAA
          1 AAA

       3027 TGACTCAATG


Statistics
Matches: 149,  Mismatches: 5, Indels: 2
        0.96            0.03        0.01

Matches are distributed among these distances:
 152  148  0.99
 153    1  0.01

ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33


Consensus pattern (152 bp):   
AAACAACTCTTTTCTTAACAAGTGAACGACTTTAGAACTCATTAAAATAAGAGTAAACTCATAAC
ACATAACTAATCTCAGGTTCAATTGAGTTCTGTAATAGATCAACAATTTAGTTAATATATATCAG
AATGTTGATAAATGTTCTAGAA

Found at i:5562 original size:21 final size:21

Alignment explanation


    Indices: 5533--5593  Score: 54
    Period size: 21  Copynumber: 2.9  Consensus size: 21

       5523 TTTGATAATT

                                  
       5533 AAAGAAAATTTTAAATATATTA
          1 AAAG-AAATTTTAAATATATTA

                     *    * *    
       5555 AAAGAAATTCTAAAAACA-TA
          1 AAAGAAATTTTAAATATATTA

            *                   
       5575 CAA-AAATTTTAATATATAT
          1 AAAGAAATTTTAA-ATATAT

       5594 ATATATATAT


Statistics
Matches: 30,  Mismatches: 7, Indels: 5
        0.71            0.17        0.12

Matches are distributed among these distances:
  19    8  0.27
  20    7  0.23
  21   11  0.37
  22    4  0.13

ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33


Consensus pattern (21 bp):   
AAAGAAATTTTAAATATATTA
Done.