Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012046.1 Kokia drynarioides strain JFW-HI SEQ_127044, 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: 1824
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25


Found at i:1329 original size:12 final size:12

Alignment explanation


    Indices: 1286--1360  Score: 60
    Period size: 13  Copynumber: 5.8  Consensus size: 12

       1276 AGATACAATG

                        
       1286 AAGAAAAAATAA
          1 AAGAAAAAATAA

               *       *   
       1298 ATAAAAAAGAAGAGA
          1 A-AGAAAA-AATA-A

                        
       1313 AAGAAAAAATAA
          1 AAGAAAAAATAA

                     *  
       1325 AAGAAAAAACAA
          1 AAGAAAAAATAA

                       *  
       1337 TAAGAAAAACAAAA
          1 -AAGAAAAA-ATAA

                      
       1351 ATAGAAAAAA
          1 A-AGAAAAAA

       1361 GGAGTCGAGG


Statistics
Matches: 51,  Mismatches: 6, Indels: 11
        0.75            0.09        0.16

Matches are distributed among these distances:
  12   13  0.25
  13   18  0.35
  14   18  0.35
  15    2  0.04

ACGTcount: A:0.80, C:0.03, G:0.11, T:0.07


Consensus pattern (12 bp):   
AAGAAAAAATAA

Found at i:1341 original size:13 final size:12

Alignment explanation


    Indices: 1312--1350  Score: 53
    Period size: 12  Copynumber: 3.2  Consensus size: 12

       1302 AAAAGAAGAG

                      * 
       1312 AAAGAAAAAATA
          1 AAAGAAAAAACA

                        
       1324 AAAGAAAAAACA
          1 AAAGAAAAAACA

                         
       1336 ATAAG-AAAAACA
          1 A-AAGAAAAAACA

               
       1348 AAA
          1 AAA

       1351 ATAGAAAAAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 3
        0.86            0.03        0.10

Matches are distributed among these distances:
  11    2  0.08
  12   20  0.80
  13    3  0.12

ACGTcount: A:0.82, C:0.05, G:0.08, T:0.05


Consensus pattern (12 bp):   
AAAGAAAAAACA
Done.