Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,042,993	0	C	T	46.2%	23.8 / 21.7	39	F193F (TTC→TTT)	srkA	Cpx stress response Thr/Ser protein kinase; MazF antagonist protein
Reads supporting (aligned to +/- strand):  ref base C (12/9);  new base T (18/0);  total (30/9)
Fisher's exact test for biased strand distribution p-value = 1.62e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGGCGATAAAGCCGAGCAGCGGATG  >  NC_000913/4042851‑4043143                                                                                                                                               |                                                                                                                                                       ccATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCt                                                                                                                                                <  2:202477/151‑1 (MQ=255)              cGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGTTCTGCGGCTACAttg                                                                                                                                    >  2:705109/1‑148 (MQ=255)                aaTATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGTTCTGCGGCTACATgg                                                                                                                                    >  1:71452/1‑148 (MQ=255)                 atatCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGAc                                                                                                                                <  1:255675/151‑1 (MQ=255)                        aTTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGATCTGCGGCCTGATGGAGAGTGccgc                                                                                                                          >  2:711453/1‑148 (MQ=255)                        aTTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAATTCACCGTTCTGCGGCTACAAGGAGACTGCCAc                                                                                                                          >  2:522876/1‑150 (MQ=255)                          tGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACACATCTGCGGCCACATGGAGACTGcgaaccc                                                                                                                       >  1:592265/1‑145 (MQ=255)                          tGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCCACATGGGGACTGGCACGcc                                                                                                                       >  2:939972/1‑151 (MQ=255)                           gAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTTCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATg                                                                                                                                     <  2:97544/136‑1 (MQ=255)                           gAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTTCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAATTCACCGTTCTGCGGCTACATgagatcgggagagcg                                                                                                                       >  1:97511/1‑136 (MQ=255)                                 cGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGGTCTGCGGCTACATGgaggagtcccccccggg                                                                                                                    >  2:512550/1‑133 (MQ=255)                                  gCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAGTTCACCGTTCTGCGGGTACATGGAGACTGCCACGCCGGGGat                                                                                                                 >  2:479408/1‑149 (MQ=255)                                    aaGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGGAGATTTTAACCTTCTGCGGCTACACAGAGACTGCCACCCCGGGGAtttt                                                                                                              >  1:588620/1‑150 (MQ=255)                                            tGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAATTCCCCGTTCTTCGGCTACATGGAGACTGCCACGCCGGGGATATTCTCTTgcgc                                                                                                     >  2:366689/1‑151 (MQ=255)                                                         cTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAATTTACCGTTCTGCGGCTACATGGAGACTGCCCCGCCGGGAATATTTTCTGGCGCGATGGTCCAAtg                                                                                         >  2:13292/1‑150 (MQ=255)                                                                     gggTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTgg                                                                            <  1:939900/151‑1 (MQ=255)                                                                      ggTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGga                                                                           <  2:124557/151‑1 (MQ=255)                                                                      ggTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGGTCTGCGGGTACATGGGGACTGCCCCGCCGGGGATATTCTCTTGCGCGATGGTCCAATGTTTGTTGATCTgg                                                                            >  2:625519/1‑150 (MQ=255)                                                                        ttGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGGAAATTTTCTGGCGCGATGGTCCAATGTTTGTTGTTCt                                                                              >  1:402894/1‑146 (MQ=255)                                                                          gAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAATTTATCGGTCTGCCGATACATCGGGACTTGCACCCCCGGAATTTTTTCTGGCCCGGTGGGCCAAAGGTTGTTGTTCTgggt                                                                          >  1:381195/1‑146 (MQ=255)                                                                           aaaGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGGAGATTTTACCGGTCTGCGGCCACATGGGGAACTCCACGCCGGGGAGATTTTCTGGCGCGAAGGGCCCATGTTTGTTGATCTTggtgat                                                                       >  1:485463/1‑150 (MQ=255)                                                                            aaGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAATTCACCGGTCTTCGGCTTCATTGAGACTGCCACGCCGGGGATATTCTCTTGCGCGGTGGGCCCATGTTTGTTGATCTgg                                                                            >  2:655104/1‑144 (MQ=255)                                                                                   aTTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGTTCTGCGGCTACATGGGGACTGCCCCGCCGGGGATATTCTCTGGCGCGGTGGGCCAATGTTTTTTGATTTGGATGGTGGACGTaa                                                               >  2:142770/1‑150 (MQ=255)                                                                                   aTTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCggg                                                                                                                    <  1:1084569/97‑1 (MQ=255)                                                                                        tGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGGAGATTTTACCGTTCTGCGGCTACATTGAGACTGCCACGCCGGGGAAATTTTCTTGCGCGGTGGGTCCATGTTTGTTGATCTGGGTGATGCACGTAATgg                                                            >  1:656574/1‑148 (MQ=255)                                                                                        tGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCGTTCTGCGGCTACCTTGAGACTGCCCCGCCGGGGATATTCTCTGGCGCGGTGGGCCCATGTTTGTTGGTTTGGATGATGCACGTAATgg                                                            >  1:533766/1‑148 (MQ=255)                                                                                         gAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGCAGATTTCACCGCTTTGCGGCCACTTAGAGACAGCCACGCCGGGGAAATTTTCTTGCGGGGTGGTCCAATGTTTGTTGATATGGGTGATGCACGGaaaag                                                            >  1:465972/1‑144 (MQ=255)                                                                                           aaGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGc                                                      <  2:443884/151‑1 (MQ=255)                                                                                            aGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGGAGATTTTACCCTTTTTCGGCTACATGGGGACTGCCACCCCCGGGATATTTTCTGGCGCGGGGGGCCCATGTTTGTTTATCTGGGTGATGCACGTAATGGTCCAGcc                                                     >  1:105038/1‑151 (MQ=255)                                                                                             gCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTACCCCTTTTCGGCTACATGGAGACTGCCCCCCCGGGAAAATTTTCTGGCGCGGTGGGCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGcc                                                     >  1:612763/1‑150 (MQ=255)                                                                                               gACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGAAGTTACCGTTCTGCGGCTTCATGGTGAAGGCCACGCCCGGGATATTTTCTGGCGCGATGGGCCCATGTTTTTTGTTCTGGAGGAAGCACGAAAAAGTCCAGCCg                                                    >  1:99678/1‑149 (MQ=255)                                                                                                       aGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTTTTCGGCTACATGGAGAATGCCACGCCGGGGAAATTTTCTTGCGCGGTGGGCCAATGTTTGTTGAATTGGATGATGGACGTTATGGGCCAGCCGTTCAGGAttt                                          >  2:1047326/1‑151 (MQ=255)                                                                                                            aTTGCCGCCGTTACAGCACACTGGCGGGAAGATTTTAACGCTCTTCGGGTATATCGTGGGTGACCCGCCGGGGATATTTTTCTGCGCGGCCGTGCAACGATTGTTGTTCTGGAAGCAGGAAGTAAAGGTTCAGCTGGTCAGGATTtgttg                                      >  2:677551/1‑148 (MQ=255)                                                                                                                 cgccgTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTg                                <  2:921993/151‑1 (MQ=255)                                                                                                                    cgTTACAGCACACTGGCGGGGAGATTTTACCGTTCTGCGGGTACATGGAGACTGCCACGCCGGGGATATTTTCTGGCGCGATGGTCCCATGTTTTTTTATCTGGGTGATGCACGTAATGGTCCAGGCGTTCTGGGTTTGTGGGTGtt                                 >  1:942971/1‑147 (MQ=255)                                                                                                                    cgTTACAGCACACTGGCGGGAAGATTTCACCGGTTTGCGGCTACATGGAGACCGCCACGCCGGGGATATTTTCTGGCGCGATGGGCCCATGTTTGTTGGTCTGGGTGATGCACGTAATGGTCCAGCCGTTTAGGGTTTGTGGGTGtt                                 >  2:472189/1‑147 (MQ=255)                                                                                                                                      ggAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGGCGATAAAGCCg             >  1:144251/1‑149 (MQ=255)                                                                                                                                        aaGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGGCGATAAAGCCGagc          >  1:463772/1‑150 (MQ=255)                                                                                                                                             ttCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGGCGATAAAGCCGAGCAGCgg     <  1:840663/150‑1 (MQ=255)                                                                                                                                               cACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGGCGATAAAGCCGAGCAGCGGATg  <  1:711390/151‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                       CCATCGGTTTGAACGAATATCTCATTGAGCCACGCAAGCTGTTTGAGGACGCTACACTGATACCTTCCGGGTTGAAAGCGGCATTCCTGAAAGCGACAGATGAGCTGATTGCCGCCGTTACAGCACACTGGCGGGAAGATTTCACCGTTCTGCGGCTACATGGAGACTGCCACGCCGGGAATATTCTCTGGCGCGATGGTCCAATGTTTGTTGATCTGGATGATGCACGTAATGGTCCAGCCGTTCAGGATTTGTGGATGTTGCTCAATGGCGATAAAGCCGAGCAGCGGATG  >  NC_000913/4042851‑4043143

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑