Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,111,747	0	G	T	56.0%	10.9 / 36.1	25	N156K (AAC→AAA)	yiiQ	DUF1454 family putative periplasmic protein
Reads supporting (aligned to +/- strand):  ref base G (11/0);  new base T (0/14);  total (11/14)
Fisher's exact test for biased strand distribution p-value = 2.24e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.98e-04

ATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTC‑AACAGCGAAGGTCAGCCCCTTTTCG‑CC‑G‑TTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCTTTTTGCTCTGGCCCCTGGATGGGTAGCC  >  NC_000913/4111617‑4111892                                                                                                                                       |                                                                                                                                                  ttttttcaaccccTCCAAGCGATCCAGATGGCCCCATCTTATTCGGTTC‑AACAGCTAAGGTCACCCCTTTTTCG‑CC‑G‑TTGTCCGCGACACCAAAACGCAGTGCCCCTTCTTTCTGGGTGTAATACCTTTTTTTTTTCCCCGCCGTtagtag                                                                                                                               <  2:189918/140‑1 (MQ=255)                     gATTCAGATAGCGCCAGCTTAATCGGTTC‑AACAGCGAAGGTCAGCCCCTTTTCG‑CC‑G‑TTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTgg                                                                                                            >  2:201869/1‑150 (MQ=255)                                   ccattttaacGGTTCAAACAGCGAGGGCCACCCCTTTTTCG‑CG‑T‑TTGCCCGCAACAACATACCGCGGTCCCCTTTCTTTCTGGGTGTAATAAGTTTTTTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGt                                                                                              <  2:159040/142‑1 (MQ=255)                                    aGCTTAATCGGTTC‑AACAGCGAAGGTCAGCCCCTTTTCG‑CC‑G‑TTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCa                                                                                            >  2:114744/1‑151 (MQ=255)                                     gCTTAATCGGTTC‑AACAGCGAAGGTCAGCCCCTTTTCG‑CC‑G‑TTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCAt                                                                                           >  2:53840/1‑151 (MQ=255)                                        tAATGGGTCA‑AACGGCGAGGGTCAGCCCTTTTTCC‑CC‑T‑TTGCCCCCAACAATATAACGCGGTCCTCCTTTTTTCTCGGTGTAATATCGTTTTTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTaa                                                                                        <  2:188357/151‑1 (MQ=255)                                              gtac‑AACAGCGGGGGTCCCCCCTTTTTCC‑CT‑T‑TTGCCCGCGAAACTATACCGCGGTGCTCCTTCTGTTTGGGTTTAATATTGTTTTTTTTCCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATgggg                                                                                   <  2:131210/147‑1 (MQ=255)                                              gtac‑AACAGAAAGGGTCA‑CCCCCTTTCG‑CCTG‑TTCCCGGCAACAACATAACGAAGTGCCCCTGTTGGTTCGTTGTATTACCGTTTTTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATgggg                                                                                   <  1:217520/147‑1 (MQ=255)                                               atcaaaCAGCGAAGCTCAGCCCTTTTTGC‑CG‑G‑TTGTCCGCAACAACATAACGCAGTGCCCTTTCTGTCTGGGTTTAATATCTTTTTTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATgggg                                                                                   <  1:168955/146‑1 (MQ=255)                                                 c‑AACAGCGAAGGTCA‑CCCCTTTTCGCCC‑T‑TTGCCCGCGAAAAAATACCGCGGTGCCCCTTTTTTCTGGGTGTAATAACTTTTTTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAg                                                                               <  2:399370/151‑1 (MQ=255)                                                          aaGGTCAGCCCTTTTCCG‑CC‑G‑TTGTCCGCAACAACATACCGCAGTGCACCTTCTGTCTCGGTGTAATAGTGTTTTTTTTCCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGa                                                                       <  1:36110/151‑1 (MQ=255)                                                              gcccccccTTTTTC‑CC‑GTTTGCCCGCAACAACAAAACGCGTTGCCCCTTCTTTCTCGGTGTAATATCTTTTTTTTTTCGCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATc                                                                     <  2:373468/146‑1 (MQ=255)                                                                                 tttGTCCGCAGAAACAAAACACGGTGGCCTTTGTGTCTGGGTTAAATGGGGTTTTTTTTCCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGATTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTcc                                                   <  2:11942/150‑1 (MQ=255)                                                                                    gTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGa                                                >  1:325473/1‑151 (MQ=255)                                                                                      ccGCAAAAAAATACCGCTGTGCCCTTTCTTTCTGGTTGTAATATCTTTTTTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAgc                                              <  1:58634/151‑1 (MQ=255)                                                                                              acaTAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAgctttcgctt                                      >  2:135731/1‑151 (MQ=255)                                                                                              acaTAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAgctttcgctt                                      >  1:364662/1‑151 (MQ=255)                                                                                              acaTAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAgctttcgctt                                      >  1:123800/1‑151 (MQ=255)                                                                                               caTAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAgctttcgcttt                                     >  2:368224/1‑151 (MQ=255)                                                                                                        gTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCttt                            >  1:3800/1‑151 (MQ=255)                                                                                                                     ttgggtgtattatttttttttttTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCTTTTTGCTCTGGcccc               <  2:134289/136‑1 (MQ=255)                                                                                                                         gtttattatctttttttttTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCTTTTTGCTCTGGCCCCTgg            <  2:394836/139‑1 (MQ=255)                                                                                                                         gtgtAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCTTTTTGCTCTGGCCCCTGGa           >  1:19077/1‑151 (MQ=255)                                                                                                                          tgtAATATCTTTTTTTTTCCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCTTTTTGCTCTGGCCCCTGGAt          <  1:408620/151‑1 (MQ=255)                                                                                                                          tgtAATAGTGTTTTTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCTTTTTGCTCTGGCCCCTGGAt          <  1:376632/151‑1 (MQ=255)                                                                                                                           gtAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCTTTTTGCTCTGGCCCCTGGATg         >  1:210103/1‑151 (MQ=255)                                                                                                                              atgagtttttttttCCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCCCCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCTTTTTGCTCTGGCCCCTGGATGGGt      <  1:43421/145‑1 (MQ=255)                                                                                                                                  cGTTTTTTTTCCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCTTTTTGCTCTGGCCCCTGGATGGGTAGcc  <  2:212121/151‑1 (MQ=255)                                                                                                                                       |                                                                                                                                                  ATTTATTCAAACCTTCAAGCGATTCAGATAGCGCCAGCTTAATCGGTTC‑AACAGCGAAGGTCAGCCCCTTTTCG‑CC‑G‑TTGTCCGCGACAACATAACGCAGTGCACCTTCTGTCTCGGTGTAATAACGTTTGTTTTTCCCCGCCGTTAGTAGCGACTGCAGTTTTTTCTGGCTTTGTGTTTTGGTCATTAATGGGGTGAGTGTGCGGATCACCGCTGCCATGTATTCCTGAGCTTTCGCTTTCGCGGCTTTTTGCTCTGGCCCCTGGATGGGTAGCC  >  NC_000913/4111617‑4111892

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑