Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,003,504 A→G 9.7% D414G (GAT→GGT)  PP_4409 → site‑specific recombinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,003,5040AG 9.7% 108.4 / 3.1 41D414G (GAT→GGT) PP_4409site‑specific recombinase
Reads supporting (aligned to +/- strand):  ref base A (21/16);  new base G (2/2);  total (23/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.14e-01

GCAACATCTCGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGAATTTCAAATTCAGTACCTTGAAGAACGCCTGG  >  NC_002947/5003370‑5003644
                                                                                                                                      |                                                                                                                                            
gCAACATCTCGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGa                                                                                                                                              <  1:1263063/135‑1 (MQ=255)
gCAACATCTCGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGa                                                                                                                                              >  2:1263063/1‑135 (MQ=255)
gCAACATCTCGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCa                                                                                                                               <  1:502327/150‑1 (MQ=255)
 cAACATCTCGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCtt                                                                                                                                 >  2:236611/1‑147 (MQ=255)
 cAACATCTCGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCtt                                                                                                                                 <  1:236611/147‑1 (MQ=255)
     aTCTCGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAAt                                                                                                                          >  1:481098/1‑150 (MQ=255)
       ctcGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATAc                                                                                                                        <  2:1401753/150‑1 (MQ=255)
        tcGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGaaa                                                                                                                           >  1:407979/1‑146 (MQ=255)
        tcGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGaaa                                                                                                                           <  2:407979/146‑1 (MQ=255)
                    ttGGACTACATAGCCGCCGGCATAGCAACATTTTTTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAACGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAACTACGCGAAGGTCGAcc                                                                                                           >  2:476011/1‑150 (MQ=255)
                               aGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGGTATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTAttg                                                                                                >  1:78699/1‑150 (MQ=255)
                               aGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGGTATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTAttg                                                                                                >  1:78741/1‑150 (MQ=255)
                                 ccTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTAttgtt                                                                                              <  1:1632114/150‑1 (MQ=255)
                                   ttCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAGCACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGATGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTgg                                                                                            >  1:1572320/1‑150 (MQ=255)
                                              aaCATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGcc                                                                                 >  2:1115341/1‑150 (MQ=255)
                                               aCATTTTCTTTCTAAAGAACTACCTAGAACACAGACAAGGACAAGGTTTGACAGATATCGAATTGCTATTGATTACATGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCt                                                                                >  2:546738/1‑150 (MQ=255)
                                                  ttttCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACg                                                                             <  2:481098/150‑1 (MQ=255)
                                                           tAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACgg                                                                            <  1:1495702/142‑1 (MQ=255)
                                                           tAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACgg                                                                            >  2:1495702/1‑142 (MQ=255)
                                                           tAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTccc                                                                    >  1:1157375/1‑150 (MQ=255)
                                                           tAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTccc                                                                    >  1:912576/1‑150 (MQ=255)
                                                            aaaGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCt                                                                   <  2:1157375/150‑1 (MQ=255)
                                                              aGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTaa                                                                 <  1:728754/150‑1 (MQ=255)
                                                                      cTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAAt                                                         <  2:220110/150‑1 (MQ=255)
                                                                       tAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATg                                                        >  1:164699/1‑150 (MQ=255)
                                                                               aGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTAttgtt                                                                                              <  2:134536/104‑1 (MQ=255)
                                                                               aGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTAttgtt                                                                                              >  1:134536/1‑104 (MQ=255)
                                                                                   aaGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGATATATTAAAt                                            >  1:1304514/1‑150 (MQ=255)
                                                                                   aaGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCACTAAGAAAAAATGGAAATATTAAAt                                            >  2:92028/1‑150 (MQ=255)
                                                                                      ggCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGaaaaaa                                                          <  1:819783/133‑1 (MQ=255)
                                                                                      ggCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGaaaaaa                                                          >  2:819783/1‑133 (MQ=255)
                                                                                      ggCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCaa                                         >  1:433081/1‑150 (MQ=255)
                                                                                        cAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGc                                       >  2:38778/1‑150 (MQ=255)
                                                                                             tttGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGa                                  <  2:433081/150‑1 (MQ=255)
                                                                                             tttGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGa                                  >  1:170573/1‑150 (MQ=255)
                                                                                              ttGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGGTATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGaa                                 <  2:78741/150‑1 (MQ=255)
                                                                                              ttGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGGTATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGaa                                 <  2:78699/150‑1 (MQ=255)
                                                                                                               gCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGAATTTGAAATTCAGtgctt                <  1:92028/150‑5 (MQ=255)
                                                                                                                   ttGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGAATTTCAAATTCa                      >  2:690234/1‑140 (MQ=255)
                                                                                                                   ttGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGAATTTCAAATTCAGTACCTTgaa            <  1:1115341/150‑1 (MQ=255)
                                                                                                                   ttGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTAGTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGAATTTCAAATTCa                      <  1:690234/140‑1 (MQ=255)
                                                                                                                          cTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGAATTTCAAATTCAGTACCTTGAAGAACGcc     >  2:987671/1‑150 (MQ=255)
                                                                                                                             gCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGAATTTCAAATTCAGTACCTTGAAGAACGCCTgg  >  2:685126/1‑150 (MQ=255)
                                                                                                                                      |                                                                                                                                            
GCAACATCTCGCGTCGAAGCTTGGACTACATAGCCTTCGCCATAGCAACATTTTCTTTCTAAAGAACTACCTAGAACACAGTCAAGGGCAAGGTTTGACTGATAGCGAATTGCTATTGATTACTGGCCACGCTGATATCAGAAGTCTTCAGAAATACGCGAAGGTCGACCGAGAATTATTGTTGGAAAAGATCGCCTACGGAAACTCCCTAAGAAAAAATGGAAATATTAAATCAAGCACTGAATTTCAAATTCAGTACCTTGAAGAACGCCTGG  >  NC_002947/5003370‑5003644

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑