Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,746,952 G→A 15.6% P360S (CCG→TCG)  PP_5043 ← PhoPQ‑activated pathogenicity‑like protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,746,9520GA15.6% 66.5 / 4.8 31P360S (CCG→TCG) PP_5043PhoPQ‑activated pathogenicity‑like protein
Reads supporting (aligned to +/- strand):  ref base G (16/10);  new base A (3/2);  total (19/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.61e-01

CGCAGGCATGGCGGAAGTCCCGATCCAAGGGGTTAGCCGCAGTCCATACCTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGCCAGGCAGGCGCTGCAGGTAGTCCGTGGCGTGATCAGGG  >  NC_002947/5746820‑5747094
                                                                                                                                    |                                                                                                                                              
cGCAGGCATGGCGGAAGTCCCTATCCAAGGGGTTAGCCGCAGTCCATACCTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATaa                                                                                                                               >  2:771547/1‑149 (MQ=255)
            ggAAGTCCCGATCCAAGGGGTTAGCCGCAGTCCATACCTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCTGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCg                                                                                                                   <  2:187273/150‑1 (MQ=255)
                 tCCCGATCCAAGGGGTTAGCCGCAGTCCATACCTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACg                                                                                                              >  1:502929/1‑150 (MQ=255)
                           aGGGGTTAGCCGCAGTCCATACCTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGACAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGa                                                                                                    >  2:580642/1‑150 (MQ=255)
                           aGGGGTTAGCCGCAGTCCATACCTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGACAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGa                                                                                                    >  2:579827/1‑150 (MQ=255)
                                    ccGCAGTCCATACCTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATgcg                                                                                           >  1:293351/1‑150 (MQ=255)
                                          tcaaTACCTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAACACATCCGCCGCTCCTTCCCCCGGAGCCACATGCACGCGAGGCATCGACACGCTGGCCTGGCTACGCTGAACCATCGTCACGAGGGGACTAACAACATCggcacgca                                                                                     >  2:189932/4‑150 (MQ=255)
                                               aCCTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGccc                                                                                <  2:489012/150‑1 (MQ=255)
                                                 cTTCACTGCTACAGGCATTTCCGACACACGCACCATTTCAGGCGCAGCCCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGccccc                                                                              >  1:534391/1‑150 (MQ=255)
                                                 cTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGa                                                                                                    >  2:449582/1‑128 (MQ=255)
                                                 cTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGa                                                                                                    <  1:449582/128‑1 (MQ=255)
                                                             aGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGtt                                                                  >  2:580043/1‑150 (MQ=255)
                                                                  tttCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGgca                                                             >  1:182810/1‑150 (MQ=255)
                                                                  tttCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGgca                                                             >  2:665636/1‑150 (MQ=255)
                                                                           gCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGACAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGa                                                    <  1:579827/150‑1 (MQ=255)
                                                                           gCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGACAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGa                                                    <  1:580642/150‑1 (MQ=255)
                                                                            ccGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAg                                                   >  2:483340/1‑150 (MQ=255)
                                                                               tACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCt                                                >  2:462258/1‑150 (MQ=255)
                                                                                    gCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCt                                           >  2:300412/1‑150 (MQ=255)
                                                                                       caTGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGc                                        >  1:836325/1‑150 (MQ=255)
                                                                                       caTGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTATGGc                                        <  2:182810/150‑1 (MQ=255)
                                                                                                    ttCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATgc                                                                                            >  1:313339/1‑85 (MQ=255)
                                                                                                    ttCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATgc                                                                                            <  2:313339/85‑1 (MQ=255)
                                                                                                     tCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGCCAGGCAGGCGCTGc                          <  2:534391/150‑1 (MQ=255)
                                                                                                       gCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGCCAGGCAGGCGCTGCAg                        <  1:580043/150‑1 (MQ=255)
                                                                                                        cccGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGCCAGGCAGGCGCTGCAgg                       <  1:561232/150‑1 (MQ=255)
                                                                                                        cccGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGCCAGGCAGGCGCTGCAgg                       >  1:575685/1‑150 (MQ=255)
                                                                                                               ccACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGCCAGGCAGGCGCTGCAGGTAGTCCg                >  2:462573/1‑150 (MQ=255)
                                                                                                                 aCTTGCACGCGAGGCATCGGCAGGCTGGCCGGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGCCAGGCAGGCGCTGCAGGTAGTCCGTg              <  1:771547/150‑1 (MQ=255)
                                                                                                                      cACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGCCAGGCAGGCGCTGCAGGTAGTCCGTGGCGTg         >  2:56451/1‑150 (MQ=255)
                                                                                                                             ggCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGCCAGGCAGGCGCTGCAGGTAGTCCGTGGCGTGATCAggg  <  1:462258/150‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                              
CGCAGGCATGGCGGAAGTCCCGATCCAAGGGGTTAGCCGCAGTCCATACCTTCACTGCTACAGGCATTTCCGAAAGCCGTACCAGCACATGCGCAGCTCCTTCGCCCGGAGCCACTTGCACGCGAGGCATCGGCAGGCTGGCCTGGATACGCTGAACCATCGGCACGAGGGTAGTGACAACATGCGCACGCACGCCCCCATGGTCCGAGTTCGGCAGCACCCTGAGGCTGGTCTGGCCAGGCAGGCGCTGCAGGTAGTCCGTGGCGTGATCAGGG  >  NC_002947/5746820‑5747094

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑