Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001698.1 Kokia drynarioides strain JFW-HI SEQ_113384, 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: 5382
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35


Found at i:1296 original size:33 final size:33

Alignment explanation


    Indices: 1229--1314  Score: 104
    Period size: 33  Copynumber: 2.6  Consensus size: 33

       1219 AAATTCTCTA

                 *                      **   
       1229 CATAAGTGATTGGAACATCTATCAGCGCCGCTT
          1 CATAATTGATTGGAACATCTATCAGCGCAACTT

                                               
       1262 CATCAA-TGATTGGAACATCTATCAGTC-CAACTT
          1 CAT-AATTGATTGGAACATCTATCAG-CGCAACTT

                       *        
       1295 CATAATTGATTCGAACATCT
          1 CATAATTGATTGGAACATCT

       1315 CTCGAGGCAG


Statistics
Matches: 47,  Mismatches: 3, Indels: 6
        0.84            0.05        0.11

Matches are distributed among these distances:
  32    2  0.04
  33   42  0.89
  34    3  0.06

ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30


Consensus pattern (33 bp):   
CATAATTGATTGGAACATCTATCAGCGCAACTT

Found at i:1364 original size:33 final size:33

Alignment explanation


    Indices: 1293--1367  Score: 105
    Period size: 33  Copynumber: 2.3  Consensus size: 33

       1283 TCAGTCCAAC

                 *   *   *                 * 
       1293 TTCATAATTGATTCGAACATCTCTCGAGGCAGT
          1 TTCATCATTCATTAGAACATCTCTCGAGGCAAT

                                *            
       1326 TTCATCATTCATTAGAACATTTCTCGAGGCAAT
          1 TTCATCATTCATTAGAACATCTCTCGAGGCAAT

                     
       1359 TTCATCATT
          1 TTCATCATT

       1368 TTGTTCAACT


Statistics
Matches: 37,  Mismatches: 5, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  33   37  1.00

ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37


Consensus pattern (33 bp):   
TTCATCATTCATTAGAACATCTCTCGAGGCAAT

Found at i:3605 original size:33 final size:33

Alignment explanation


    Indices: 3568--3647  Score: 99
    Period size: 33  Copynumber: 2.4  Consensus size: 33

       3558 TCTACATAAG

                                    *         
       3568 TGATTGGAACATCTATCAAC-ACAGCTTCATCAA
          1 TGATTGGAACATCTATC-ACTACAACTTCATCAA

                  *             *           *
       3601 TGATTGCAACATCTATCACTGCAACTTCATCAT
          1 TGATTGGAACATCTATCACTACAACTTCATCAA

                 *        
       3634 TGATTCGAACATCT
          1 TGATTGGAACATCT

       3648 CTCAGGGCAG


Statistics
Matches: 40,  Mismatches: 6, Indels: 2
        0.83            0.12        0.04

Matches are distributed among these distances:
  32    2  0.05
  33   38  0.95

ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31


Consensus pattern (33 bp):   
TGATTGGAACATCTATCACTACAACTTCATCAA
Done.