Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	3,731,846	A→G	9.2%	R465R (CGT→CGC)	PP_3299 ←	lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,731,846	0	A	G	9.2%	145.0 / 5.5	54	R465R (CGT→CGC)	PP_3299	lipoprotein
Reads supporting (aligned to +/- strand):  ref base A (26/23);  new base G (2/3);  total (28/26)
Fisher's exact test for biased strand distribution p-value = 6.63e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01

ACTTGGATTACGCGGTATGAGCCCAATCCTCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTGCTCGCTCCAGGGATACCTC  >  NC_002947/3731699‑3731989                                                                                                                                                    |                                                                                                                                                aCTTGGATTACGCGGTATGAGCCCAATCATCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACTCAGTCCCATCATAGCTGTGCCACATCTGAGTCAGTTGACCACCCGCAACCCAGGGAGAGGTAGGCAGCAATAgcagcaa                                                                                                                                                >  8:296682/1‑148 (MQ=255)        ttACGCGGTATGAGCCCAATCCTCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCgctgc                                                                                                                                         >  5:165554/1‑149 (MQ=255)             cgGTATTAGCCAAATCCTCAAAGAATGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTTTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCGGGTgctgctattg                                                                                                                                    <  6:391121/149‑5 (MQ=255)                  tGAGCCCAATCCTCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTg                                                                                                                                <  3:382507/148‑1 (MQ=255)                  tGAGCCCAATCCTCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTg                                                                                                                                <  3:376441/148‑1 (MQ=255)                      cccAATCCTCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCaa                                                                                                                           >  6:125978/1‑149 (MQ=255)                      cccAATCCTCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCaa                                                                                                                           <  5:7277/149‑1 (MQ=255)                        cAATCCTCAACGAAGGTGAGCACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACACAGGGAGAGGTAGGCAGAAATAGCAGCACGCGCTGCTTCAGTTTGCGCaaat                                                                                                                         >  7:13699/1‑147 (MQ=255)                             cTCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCGCGTgctgctat                                                                                                                                      >  2:215845/1‑129 (MQ=255)                             cTCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCGCGTgctgctat                                                                                                                                      <  1:215845/131‑3 (MQ=255)                             cTCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCg                                                                                                                    <  3:223885/149‑1 (MQ=255)                              tCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCGCGTgctgctattg                                                                                                                                    <  1:207556/132‑5 (MQ=255)                              tCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCGCGTgctgctattg                                                                                                                                    >  2:207556/1‑128 (MQ=255)                               cAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCgg                                                                                                                   >  1:47331/1‑148 (MQ=255)                                     aGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCg                                                                                                            <  8:49132/149‑1 (MQ=255)                                          aGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTc                                                                                                       <  6:121514/149‑1 (MQ=255)                                                  ttctGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAg                                                                                               >  5:271977/1‑149 (MQ=255)                                                        aCCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAgctgct                                                                                          >  7:119325/1‑148 (MQ=255)                                                        aCCAAGGAATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACAACCCGCCACCCGGGTCTAGGTAGGCAGCAAAAGCAGCACGCGCGCCTTCATTTTGCGAAACAGCTCGCAAATCCGATGTCGTGAGAAgctgat                                                                                          >  6:156130/1‑146 (MQ=255)                                                         ccAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGa                                                                                        >  1:391644/1‑149 (MQ=255)                                                            aGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCt                                                                                     >  2:123583/1‑149 (MQ=255)                                                                 tttACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGAACTGCGtt                                                                                <  3:235510/149‑1 (MQ=255)                                                                                        tgCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCACTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCg                                                                                  <  6:124622/124‑1 (MQ=255)                                                                                        tgCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCACTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCg                                                                                  >  5:124622/1‑124 (MQ=255)                                                                                          ccACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTaca                                                       >  5:210923/1‑149 (MQ=255)                                                                                            acaTCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACgcgc                                                                                                                                            <  4:236638/62‑1 (MQ=255)                                                                                            acaTCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACgcgc                                                                                                                                            >  3:236638/1‑62 (MQ=255)                                                                                            acaTCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACAcc                                                     >  8:195638/1‑149 (MQ=255)                                                                                                   aGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTAGACCGTTCTg                                               <  3:154782/148‑1 (MQ=255)                                                                                                   aGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTgg                                              <  8:119325/149‑1 (MQ=255)                                                                                                   aGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTg                                               <  6:165554/148‑1 (MQ=255)                                                                                                   aGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTg                                               <  2:47331/148‑1 (MQ=255)                                                                                                       aGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATg                                          >  8:140764/1‑149 (MQ=255)                                                                                                       aGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATg                                          >  3:241346/1‑149 (MQ=255)                                                                                                         ttGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCt                                        <  5:125978/149‑1 (MQ=255)                                                                                                           gACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTAc                                      >  8:119927/1‑149 (MQ=255)                                                                                                              caccCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACg                                     >  6:202718/1‑147 (MQ=255)                                                                                                               accCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAg                                  >  8:355756/1‑149 (MQ=255)                                                                                                                 ccGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGa                                >  1:49247/1‑149 (MQ=255)                                                                                                                 ccGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGa                                <  8:13699/149‑1 (MQ=255)                                                                                                                  cGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGAc                               >  3:262613/1‑149 (MQ=255)                                                                                                                   gCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGAc                               >  8:22467/1‑148 (MQ=255)                                                                                                                    ccACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACg                              >  2:16171/1‑148 (MQ=255)                                                                                                                        ccAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAAcgt                         >  3:191520/1‑149 (MQ=255)                                                                                                                         cAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAAcgtc                        <  2:391644/149‑1 (MQ=255)                                                                                                                              cGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTgct                   <  1:16171/149‑1 (MQ=255)                                                                                                                               gAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTgctc                  <  4:241346/149‑1 (MQ=255)                                                                                                                                        agcaATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTGCTCGCTCCAgg          >  2:351967/1‑148 (MQ=255)                                                                                                                                         gcaATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGCATGCTACGAAGGACGAACGTCGTGCTCGCTCCAGGGa        >  4:48228/1‑149 (MQ=255)                                                                                                                                         gcaATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTGCTCGCTCCAGGGa        <  5:202718/149‑1 (MQ=255)                                                                                                                                           aaTAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTGCTCGCTCCAGGGATa      >  4:123043/1‑149 (MQ=255)                                                                                                                                            aTAGCAGCACGCGCTTCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTGCTCTCTCCAGGTATAc     <  7:296682/149‑1 (MQ=255)                                                                                                                                            aTAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTGCTCGCTCCAGGGATAc     <  1:123583/149‑1 (MQ=255)                                                                                                                                            aTAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTGCTCGCTCCAGGGATAc     <  7:195638/149‑1 (MQ=255)                                                                                                                                            aTAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTGCTCGCTCCAGGGATAc     <  4:191520/149‑1 (MQ=255)                                                                                                                                               gcagcaCGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTGCTCGCTCCAGGGATACCTc  <  7:140764/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                ACTTGGATTACGCGGTATGAGCCCAATCCTCAACGAAGGTGAGTACGTCTTCTGCACCAAGGCATTTACGCAGTCCCATCATCGCTGTGCCACATCTGAGTCAGTTGACCACCCGCCACCCAGGGCGAGGTAGGCAGCAATAGCAGCACGCGCTGCTTCAGTTTGCGCAACTGCTCGGAAATCCGATGTCCTGAGAAGCTGCTGATCTGCGTTCAGAACGTCTATCAAACTGGCTACACCGTTCTGGAATGCTACGAAGGACGAACGTCGTGCTCGCTCCAGGGATACCTC  >  NC_002947/3731699‑3731989

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑