Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,939,121	G→T	7.4%	intergenic (‑66/‑113)	PP_1738 ← / → PP_1739	hypothetical protein/membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,939,121	0	G	T	7.4%	162.8 / 3.7	54	intergenic (‑66/‑113)	PP_1738/PP_1739	hypothetical protein/membrane protein
Reads supporting (aligned to +/- strand):  ref base G (27/22);  new base T (2/2);  total (30/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.54e-01

GATATCCCGCGCTGAAGCGGCCACAGCCATGAGCAAGCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCGTTCGCTGCCGACG  >  NC_002947/1938981‑1939266                                                                                                                                             |                                                                                                                                                   gATATCCCGCGCTGAAGCGGCCACAGCCATGAGCAAGCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGc                                                                                                                                            >  1:79822/1‑149 (MQ=255)   tatCCCGCGCTGAAGCGGCCACAGCCATGAGCAAGCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAACTTTGCCCGcct                                                                                                                                          <  8:159186/149‑3 (MQ=255)   tatCCCGCGCTGAAGCGGCCACAGCCATGAGCAAGCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTg                                                                                                                                          >  7:177034/1‑149 (MQ=255)     tCCCGCGCTGAAGCGGCCACAGCCATGAGCAAGCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCg                                                                                                                                        <  2:79822/149‑1 (MQ=255)                aGCGGCCACAGCCATGAGCAAGCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTgg                                                                                                                             <  4:240627/149‑1 (MQ=255)                     ccACAGCCATGAGCAAGCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTAc                                                                                                                       >  1:197898/1‑149 (MQ=255)                        caGCCATGAGCAAGCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTg                                                                                                                    <  7:17597/149‑1 (MQ=255)                         aGCCATGACCAAGATGCCGACCACCCCAGCGAGACGCATAGATCGAATCATCAAATCCCCCAAAAGAACGCAAGGACGAGAAGTGTTCAGGCTAGGACCACAACCAGGCGGCCAAACTTGCCCGCTGCGGTGGCATATGGC‑GTACTTga                                                                                                                   >  8:18591/1‑148 (MQ=255)                                    aGCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACa                                                                                                        >  7:69247/1‑149 (MQ=255)                                     gCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACAt                                                                                                       <  3:304821/149‑1 (MQ=255)                                       tGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTAt                                                                                                                <  2:31026/138‑1 (MQ=255)                                       tGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTAt                                                                                                                >  1:31026/1‑138 (MQ=255)                                         ccGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAg                                                                                                     <  1:181834/147‑1 (MQ=255)                                             gCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCg                                                                                               >  8:251320/1‑149 (MQ=255)                                                   aaGCCAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGgtgt                                                                                         <  8:188411/148‑1 (MQ=255)                                                       gAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGAtt                                                                                     >  3:270709/1‑149 (MQ=255)                                                         ggCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGAtttt                                                                                   <  7:251320/149‑1 (MQ=255)                                                             cAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCt                                                                               <  7:134564/149‑1 (MQ=255)                                                                  aTCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGa                                                                           >  6:88716/1‑148 (MQ=255)                                                                          aTGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCa                                                                   >  5:203297/1‑148 (MQ=255)                                                                            gTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGc                                                                                                 >  3:148295/1‑116 (MQ=255)                                                                            gTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGc                                                                                                 <  4:148295/116‑1 (MQ=255)                                                                                tCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGa                                                            >  1:288970/1‑149 (MQ=255)                                                                                   cccAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCa                                                         >  6:160623/1‑149 (MQ=255)                                                                                    ccAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCAt                                                        <  6:203297/149‑1 (MQ=255)                                                                                      aaaaGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATg                                                       >  4:141560/1‑148 (MQ=255)                                                                                         aGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATg                                                   >  4:293533/1‑149 (MQ=255)                                                                                         aGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATg                                                   <  5:88716/149‑1 (MQ=255)                                                                                           aaCGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCt                                                 >  8:240041/1‑149 (MQ=255)                                                                                              gCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTc                                              <  2:197898/149‑1 (MQ=255)                                                                                                aaGGTCGAGCAGTGTGCAGGGTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGa                                            <  5:130728/149‑1 (MQ=255)                                                                                                  ggTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGAt                                           >  1:33698/1‑148 (MQ=255)                                                                                                   gTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTa                                         <  2:288970/149‑1 (MQ=255)                                                                                                         cAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGCTGGAAATGGGATAAGGAACAAAGCGGGCGGGGGGTGATTTTTGCATATAAAAGGGGAAAAGCGATAATGGATGGTTTGGATTaaccc                                     >  1:93723/1‑144 (MQ=255)                                                                                                              tgCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGTCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTgg                               <  4:89626/148‑1 (MQ=255)                                                                                                               gCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGAtt                                                                                     >  8:295863/1‑93 (MQ=255)                                                                                                               gCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGAtt                                                                                     <  7:295863/93‑1 (MQ=255)                                                                                                                cAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGTCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGgag                             >  4:17726/1‑148 (MQ=255)                                                                                                                   gCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACa                         <  7:240041/149‑1 (MQ=255)                                                                                                                       ggACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGAt                     <  4:270709/149‑1 (MQ=255)                                                                                                                          ccACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGtc                  >  3:96441/1‑149 (MQ=255)                                                                                                                           cacaACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGtct                 >  3:312731/1‑149 (MQ=255)                                                                                                                           cacaACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATCCTTTCGATTACCGCTATTGGAGAACAGGATGtct                 >  6:72465/1‑149 (MQ=255)                                                                                                                             caACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCg               >  2:18827/1‑149 (MQ=255)                                                                                                                                ccAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCGTTc            <  8:177034/149‑1 (MQ=255)                                                                                                                                  cagCGGGCAACTTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTTGAGAACa                         <  5:283508/132‑1 (MQ=255)                                                                                                                                  cagCGGGCAACTTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGATATAGGAGAACa                         >  6:283508/3‑134 (MQ=255)                                                                                                                                  aGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCGTTCGc          >  8:107177/1‑149 (MQ=255)                                                                                                                                   ggCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCGTTCGCt         <  4:252863/149‑1 (MQ=255)                                                                                                                                   agCGGGCAACTTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCGTTCGCt         >  8:30533/2‑149 (MQ=255)                                                                                                                                    gCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCGTTCGCTg        >  5:253352/1‑149 (MQ=255)                                                                                                                                    gCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCGTTCGCTg        >  1:217109/1‑149 (MQ=255)                                                                                                                                      gggCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCGTTCGCTGcc      <  4:3556/149‑1 (MQ=255)                                                                                                                                          aaaGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCGTTCGCTGCCGACg  >  2:289671/1‑149 (MQ=255)                                                                                                                                             |                                                                                                                                                   GATATCCCGCGCTGAAGCGGCCACAGCCATGAGCAAGCTGCCGAGCAGGGCAGCGAGGCGCAAAGATCGAAGCATGTAATCCCCCAAAAGAACGCAAGGTCGAGCAGTGTGCAGGCTAGGACCACAACCAGGCGGGCAAAGTTGCCCGCTGCGGTGGCATTTGGC‑GTACTTGCTATCTGCAACATAGCTGCCGGGGTGTGATTTTGCCTTAGAAACGGGCATAAGCGATCATGGATGCTTTCGATTACCGCTATTGGAGAACAGGATGTCTCGTTCGCTGCCGACG  >  NC_002947/1938981‑1939266

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑