Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 32,567 G→T 7.5% A56S (GCA→TCA)  PP_5422 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_00294732,5670GT 7.5% 167.6 / 2.1 53A56S (GCA→TCA) PP_5422hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (26/23);  new base T (2/2);  total (28/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01

TTGGACATGTAATAGATTGTAAGATAATTATTCGAGAGAATATCGAGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAATCTTGCGGCTACATTACAAATTTGT  >  NC_002947/32421‑32716
                                                                                                                                                  |                                                                                                                                                     
ttGGACATGTAATAGATTGTAAGATAATTATTCGAGAGAATATCGAGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCaa                                                                                                                                                    <  2:1286797/150‑1 (MQ=255)
ttGGACATGTAATAGATTGTAAGATAATTATTCGAGAGAATATCGAGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCaa                                                                                                                                                    <  2:867685/150‑1 (MQ=255)
    aCATGTAATAGATTGTAAGATAATTATTCGAGAGAATATCGAGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTa                                                                                                                                                <  2:13340/150‑1 (MQ=255)
           aTAGATTGTAAGATAATTATTCGAGAGAATATCGAGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCg                                                                                                                                         >  2:255735/1‑150 (MQ=255)
                ttGTAAGATAATTATTCGAGAGAATATCGAGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAAtg                                                                                                                                    >  2:1543153/1‑150 (MQ=255)
                       aTAATTATTCGAGAGAATATCGAGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTg                                                                                                                             >  2:702251/1‑150 (MQ=255)
                              ttCGAGAGAATATCGAGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGc                                                                                                                      <  2:1478374/150‑1 (MQ=255)
                                 gagagaATATCGAGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCgg                                                                                                                   >  1:147025/1‑149 (MQ=255)
                                             aGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCa                                                                                                       <  1:1543153/150‑1 (MQ=255)
                                                        gAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGt                                                                                            <  1:702251/150‑1 (MQ=255)
                                                            tAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATa                                                                                        >  1:1425921/1‑150 (MQ=255)
                                                             aaTTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATac                                                                                       <  2:1425921/150‑1 (MQ=255)
                                                                    aGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTg                                                                                                                                                       <  1:1293331/79‑1 (MQ=255)
                                                                    aGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTg                                                                                                                                                       >  2:1293331/1‑79 (MQ=255)
                                                                    aGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGa                                                                                                                   <  2:931145/115‑1 (MQ=255)
                                                                    aGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGa                                                                                                                   >  1:931145/1‑115 (MQ=255)
                                                                      aaaGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCa                                                                              >  2:1080735/1‑150 (MQ=255)
                                                                         ggCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTg                                                                                             <  2:195085/132‑1 (MQ=255)
                                                                         ggCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTg                                                                                             >  1:195085/1‑132 (MQ=255)
                                                                            gcTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGcccc                                                                        >  1:539347/1‑150 (MQ=255)
                                                                              tGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTc                                                                                           <  1:1271619/129‑1 (MQ=255)
                                                                              tGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTc                                                                                           >  2:1271619/1‑129 (MQ=255)
                                                                                        ggCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTAt                                                            >  2:1131313/1‑150 (MQ=255)
                                                                                              gCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAg                                                      <  1:1080735/150‑1 (MQ=255)
                                                                                              gCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAg                                                      <  2:539347/150‑1 (MQ=255)
                                                                                               cATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGTCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAgg                                                     <  1:244619/150‑1 (MQ=255)
                                                                                                     gTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTc                                                                                           >  1:391663/1‑106 (MQ=255)
                                                                                                     gTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTc                                                                                           <  2:391663/106‑1 (MQ=255)
                                                                                                     gTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAgggg                                                   >  2:106574/1‑146 (MQ=255)
                                                                                                     gTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAgggg                                                   <  1:106574/146‑1 (MQ=255)
                                                                                                     gTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGa                                               <  1:255735/150‑1 (MQ=255)
                                                                                                              cGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATg                                      >  1:608028/1‑150 (MQ=255)
                                                                                                                  gcgcCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTg                                  >  2:800475/1‑150 (MQ=255)
                                                                                                                       cTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCa                                                                                          <  1:1507425/89‑1 (MQ=255)
                                                                                                                       cTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCa                                                                                          >  2:1507425/1‑89 (MQ=255)
                                                                                                                          gATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAAt                          <  1:1131313/150‑1 (MQ=255)
                                                                                                                             ccAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAATCtt                       <  2:608028/150‑1 (MQ=255)
                                                                                                                              cAAGGCCAGTACCAGTCCTTTCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATcc                                                                 <  1:349379/107‑1 (MQ=255)
                                                                                                                              cAAGGCCAGTACCAGTCCTTTCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATcc                                                                 <  1:349249/107‑1 (MQ=255)
                                                                                                                              cAAGGCCAGTACCAGTCCTTTCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATcc                                                                 >  2:349379/1‑107 (MQ=255)
                                                                                                                              cAAGGCCAGTACCAGTCCTTTCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATcc                                                                 >  2:349249/1‑107 (MQ=255)
                                                                                                                               aaGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAATCTTGc                     >  2:1564324/1‑150 (MQ=255)
                                                                                                                               aaGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAATCTTGc                     >  1:435029/1‑150 (MQ=255)
                                                                                                                                   ccAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAATCTTGCGGCt                 >  1:1401734/1‑150 (MQ=255)
                                                                                                                                   ccAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAATCTTGCGGCt                 >  1:931053/1‑150 (MQ=255)
                                                                                                                                    cAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAgg                                                                            >  1:744122/1‑90 (MQ=255)
                                                                                                                                    cAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAgg                                                                            <  2:744122/90‑1 (MQ=255)
                                                                                                                                        aCCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTa                                                             >  2:34365/1‑101 (MQ=255)
                                                                                                                                        aCCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTa                                                             <  1:34365/101‑1 (MQ=255)
                                                                                                                                         ccAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAgg                                                                                                     >  2:1584530/1‑60 (MQ=255)
                                                                                                                                         ccAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAgg                                                                                                     <  1:1584530/60‑1 (MQ=255)
                                                                                                                                               cTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAATCTTGCGGCTACATTACAAAtt     >  1:1386488/1‑150 (MQ=255)
                                                                                                                                               cTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAATCTTGCGGCTACATTACAAAtt     >  2:1154605/1‑150 (MQ=255)
                                                                                                                                                ttGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACt                                   <  1:879721/119‑1 (MQ=255)
                                                                                                                                                ttGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACt                                   >  2:879721/1‑119 (MQ=255)
                                                                                                                                                  gCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCTAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAATCTTGCGGCTCCATTACAAATTTGt  >  2:230271/1‑150 (MQ=255)
                                                                                                                                                  |                                                                                                                                                     
TTGGACATGTAATAGATTGTAAGATAATTATTCGAGAGAATATCGAGCCGCCACGTGAACTAATTTGCAGAAAGGCGCTGCGGTTTGCGGCCGTGCATGGGGTCTGCCTGCGTGGCGCCCTCGATCCAAGGCCAGTACCAGTCCTTGCAAGCTAACGACCGAAATGCTGCCTGTCCTGGCCGATTCCACCTGCCAGGCGAATCTGTCATACACCGCCGCAGGCCCCAGAATCCGCTATGCTTAGGGGTGGAGCCTGCATGACTGTCAGAAATCTTGCGGCTACATTACAAATTTGT  >  NC_002947/32421‑32716

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑