Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000937.1 Kokia drynarioides strain JFW-HI SEQ_112095, 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: 10883
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35


Found at i:1582 original size:71 final size:71

Alignment explanation


    Indices: 1492--1636  Score: 263
    Period size: 71  Copynumber: 2.0  Consensus size: 71

       1482 ACATAAAAAA

                                                                             
       1492 TAAAAATGCTTTAAAGGAACCTTATCTCAAGACAAAATACATATCGTCTCGAGACCAACCAACAT
          1 TAAAAATGCTTTAAAGGAACCTTATCTCAAGACAAAATACATATCGTCTCGAGACCAACCAACAT

                  
       1557 CGAAGC
         66 CGAAGC

                    *                                                 *      
       1563 TAAAAATGGTTTAAAGGAACCTTATCTCAAGACAAAATACATATCGTCTCGAGACCAATCAACAT
          1 TAAAAATGCTTTAAAGGAACCTTATCTCAAGACAAAATACATATCGTCTCGAGACCAACCAACAT

            *     
       1628 TGAAGC
         66 CGAAGC

               
       1634 TAA
          1 TAA

       1637 GGTATGTTTC


Statistics
Matches: 71,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  71   71  1.00

ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23


Consensus pattern (71 bp):   
TAAAAATGCTTTAAAGGAACCTTATCTCAAGACAAAATACATATCGTCTCGAGACCAACCAACAT
CGAAGC

Found at i:4560 original size:81 final size:84

Alignment explanation


    Indices: 4453--4698  Score: 286
    Period size: 88  Copynumber: 2.9  Consensus size: 84

       4443 GATGTTAAGA

                 *     *         *                         *                 
       4453 TTGCATGGTAGTTTAAGCAAAAATGAATTGCAAATACTTATGTGTGTGTATATATGGCATTGTTA
          1 TTGCACGGTAGGTTAAGCAAAGATGAATTGCAAATACTTATGTGTGTATATATATGGCATTGTTA

                               
       4518 TGTGTTATAAC-G-G-AGG
         66 TGTGTTATAACAGAGTAGG

                     *                                                       
       4534 TTGCACGGTTGGTTAAGCAAAGATGAATTGCAAATACTTA--TGTGTATATATATGGCATTGTTA
          1 TTGCACGGTAGGTTAAGCAAAGATGAATTGCAAATACTTATGTGTGTATATATATGGCATTGTTA

               *                     
       4597 TGTATTATAACAGAAGATGTTAAGG
         66 TGTGTTATAAC---AGA-G-T-AGG

                       *                *                *                   
       4622 TTGCACGGTAGTTTAAGCAAAGATGAATGGCAAATACTTATGTGTATATATATGTATGGCATTGT
          1 TTGCACGGTAGGTTAAGCAAAGATGAATTGCAAATACTTATGTGTGTATATA--TATGGCATTGT

              *   *     
       4687 TACGTGATATAA
         64 TATGTGTTATAA

       4699 TGGTAGTGTG


Statistics
Matches: 139,  Mismatches: 13, Indels: 15
        0.83            0.08        0.09

Matches are distributed among these distances:
  79   32  0.23
  81   36  0.26
  83    1  0.01
  85    1  0.01
  88   40  0.29
  90    9  0.06
  92   20  0.14

ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36


Consensus pattern (84 bp):   
TTGCACGGTAGGTTAAGCAAAGATGAATTGCAAATACTTATGTGTGTATATATATGGCATTGTTA
TGTGTTATAACAGAGTAGG
Done.