Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012528.1 Kokia drynarioides strain JFW-HI SEQ_127535, 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: 1842
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.26

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:1313 original size:12 final size:12

Alignment explanation


    Indices: 1296--1377  Score: 55
    Period size: 12  Copynumber: 6.9  Consensus size: 12

       1286 CGTTTGTTTA

                        
       1296 ATGTTCATGAAC
          1 ATGTTCATGAAC

                     *   
       1308 ATGTTCATTTAAC
          1 ATGTTCA-TGAAC

                 *       
       1321 ---TTAATCGAAC
          1 ATGTTCAT-GAAC

                   *    
       1331 ATGTTCACGAAC
          1 ATGTTCATGAAC

                **      
       1343 AT-TAAATGAAC
          1 ATGTTCATGAAC

                        
       1354 ATGTTCATGAAC
          1 ATGTTCATGAAC

                  *     
       1366 AATGTTAATGAA
          1 -ATGTTCATGAA

       1378 TAATAAACAA


Statistics
Matches: 52,  Mismatches: 11, Indels: 13
        0.68            0.14        0.17

Matches are distributed among these distances:
   9    1  0.02
  10    6  0.12
  11    8  0.15
  12   20  0.38
  13   17  0.33

ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33


Consensus pattern (12 bp):   
ATGTTCATGAAC

Found at i:1347 original size:23 final size:23

Alignment explanation


    Indices: 1302--1366  Score: 80
    Period size: 23  Copynumber: 2.8  Consensus size: 23

       1292 TTTAATGTTC

                           *        
       1302 ATGAACATGTTCATTTAAC-TT-A
          1 ATGAACATGTTCA-TGAACATTAA

                          *         
       1324 ATCGAACATGTTCACGAACATTAA
          1 AT-GAACATGTTCATGAACATTAA

                               
       1348 ATGAACATGTTCATGAACA
          1 ATGAACATGTTCATGAACA

       1367 ATGTTAATGA


Statistics
Matches: 37,  Mismatches: 3, Indels: 5
        0.82            0.07        0.11

Matches are distributed among these distances:
  22    5  0.14
  23   29  0.78
  24    3  0.08

ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31


Consensus pattern (23 bp):   
ATGAACATGTTCATGAACATTAA

Done.