Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,332,791	0	A	C	55.6%	15.3 / 24.3	18	V161G (GTG→GGG)	basS	sensory histidine kinase in two‑component regulatory system with BasR
Reads supporting (aligned to +/- strand):  ref base A (8/0);  new base C (0/10);  total (8/10)
Fisher's exact test for biased strand distribution p-value = 2.29e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.47e-04

GCACGCGCCAGTTGCAGCAGCTGGGAGACGCTCTCCATCATCTGATCAAGCCGTGCCACTAACGGTGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCG  >  NC_000913/4332677‑4332922                                                                                                                   |                                                                                                                                    gCACGCGCCAGTTGCAGCAGCTGGGAGACGCTCTCCATCATCTGATCAAGCCGTGCCACTAACGGTGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGt                                                                                                 >  2:156836/1‑151 (MQ=255)      cgccgttggcggcagcGGGGAGACGCTCTCCATCATCTGATCAACCCGTGCCACAAACGGTGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCCCCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCa                                                                                               <  2:222669/137‑1 (MQ=255)         cAGTTGCAGCAGCTGGGAGACGCTCTCCATCATCTGATCAAGCCGTGCCACTAACGGTGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGt                                                                                          >  1:234726/1‑150 (MQ=255)               cggcaggggggAGCCGCTCCCCACCCTCGAACCAACCCGTCCCACAAACGTTGCTACACCAAGGTTATGCTTTTTCCCCAGAATTCCAAGATGCAACCCCCCCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAaacaa                                                                                    <  1:508410/142‑1 (MQ=255)                      tGGGAGACGCTCTCCATCATCTGATCAAGCCGTGCCACTAACGGTGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGt                                                                            >  1:23031/1‑151 (MQ=255)                       gggAGCCGCTCTCAATCTTCTGATCAAGCCGGGCCAATAACGGTGCTACAACAATGTGATGCTTTTTCGCCAGCAGTCCCAGATGAAAACGCCCCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTc                                                                              <  2:198403/148‑1 (MQ=255)                         gagaCGCTCTCCATCATCTGATCAAGCCGTGCCACTAACGGTGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTAt                                                                         >  2:396645/1‑151 (MQ=255)                             cGCTCCCCACCATCTAAACAGCCCGTGCCACTACCGGTGCTACATCAATGGGTTGCTTTTCCCCCGGCATTTCCAGATGAAAACGCCCCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAg                                                                     <  1:375247/151‑1 (MQ=255)                              gCTCTCCATCATCTGATCAAGCCGTGCCACTAACGGTGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGc                                                                    >  2:75579/1‑151 (MQ=255)                                             atcagccggTGCCCCTACGGGTGCACCATCAATGGTATGTTTTTTCCCCAGCGGTTCAAGATGCAAACCCCCCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAg                                                         <  1:20576/139‑1 (MQ=255)                                                   ccGTGCCACTACCGGTGCTACATCAATGTGATGCTTTTCCGCCAGCATTTCCAGATGAAAACCCCCCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTg                                                  <  2:364283/148‑1 (MQ=255)                                                        ccACAAAGGGTCCTCCAAAAATGGGTTGGGTTTCCCCGAGCATTTCGAGATGCAACCCCCCCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGAt                                           <  1:446537/150‑1 (MQ=255)                                                          aCTAACGGTGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGt                                        >  1:278911/1‑151 (MQ=255)                                                                          cAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAaccac                        >  1:418740/1‑151 (MQ=255)                                                                                        tccGCCGGCAGTCCCAGATGAAACCCCCCCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGAtt              <  1:129983/145‑1 (MQ=255)                                                                                            ccAGCAGTGCCAGAGCCAAACCCCCCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCg           <  1:156794/146‑1 (MQ=255)                                                                                               gcatTTCAAGAGGCAACCCCCCCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCg           <  1:206354/143‑1 (MQ=255)                                                                                                 agTTCCAGATGCAAACGCACCCCCGCAAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGgcg  >  1:375130/1‑150 (MQ=255)                                                                                                                   |                                                                                                                                    GCACGCGCCAGTTGCAGCAGCTGGGAGACGCTCTCCATCATCTGATCAAGCCGTGCCACTAACGGTGCTACATCAATGTGATGCGTTTTCGCCAGCAGTTCCAGATGCAAACGCACCCCCGCCAGTGGCGTTCGCAGTTCGTGCGCGACGTCAGCGGTAAACAACCTTTCGTTATCCAGCGTGCTGGTCAGGCGACTGACCAGATCGTTTAACGCCGAAACCACCGCTTCGATTTCGAGGGTGGCG  >  NC_000913/4332677‑4332922

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑