Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014994.1 Kokia drynarioides strain JFW-HI SEQ_130038, 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: 4543
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.35


Found at i:476 original size:109 final size:109

Alignment explanation


    Indices: 283--503  Score: 406
    Period size: 109  Copynumber: 2.0  Consensus size: 109

        273 AGGATATTCC

                                                  *                          
        283 AAATTAATTTAATTGATATCTACCACATGTCAACAACTGCAGGCAGATTAATCACTATGAATTTT
          1 AAATTAATTTAATTGATATCTACCACATGTCAACAACTACAGGCAGATTAATCACTATGAATTTT

                                         *              
        348 CAAAGCAAAAACAAAGCCCACAAGCTTCCGGAGGGGAATTGTAG
         66 CAAAGCAAAAACAAAGCCCACAAGCTTCCAGAGGGGAATTGTAG

                                     *                                       
        392 AAATTAATTTAATTGATATCTACCATATGTCAACAACTACAGGCAGATTAATCACTATGAATTTT
          1 AAATTAATTTAATTGATATCTACCACATGTCAACAACTACAGGCAGATTAATCACTATGAATTTT

                          *                             
        457 CAAAGCAAAAACAAGGCCCACAAGCTTCCAGAGGGGAATTGTAG
         66 CAAAGCAAAAACAAAGCCCACAAGCTTCCAGAGGGGAATTGTAG

               
        501 AAA
          1 AAA

        504 ACCCAAAAAA


Statistics
Matches: 108,  Mismatches: 4, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
 109  108  1.00

ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25


Consensus pattern (109 bp):   
AAATTAATTTAATTGATATCTACCACATGTCAACAACTACAGGCAGATTAATCACTATGAATTTT
CAAAGCAAAAACAAAGCCCACAAGCTTCCAGAGGGGAATTGTAG

Found at i:1330 original size:19 final size:20

Alignment explanation


    Indices: 1296--1336  Score: 57
    Period size: 19  Copynumber: 2.1  Consensus size: 20

       1286 ATGGAACATA

                  *             
       1296 AAATATGAATTAAATTATTT
          1 AAATATCAATTAAATTATTT

                            *   
       1316 AAATATCAA-TAAATTTTTT
          1 AAATATCAATTAAATTATTT

              
       1335 AA
          1 AA

       1337 TTTACAAAAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  19   11  0.58
  20    8  0.42

ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44


Consensus pattern (20 bp):   
AAATATCAATTAAATTATTT
Done.