Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,394,579	0	G	C	41.3%	80.0 / 22.2	47	G172R (GGC→CGC)	nnr	bifunctional NAD(P)H‑hydrate repair enzyme; C‑terminal domain ADP‑dependent (S)‑NAD(P)H‑hydrate dehydratase and N‑terminal domain NAD(P)H‑hydrate epimerase
Reads supporting (aligned to +/- strand):  ref base G (4/23);  new base C (19/0);  total (24/23)
Fisher's exact test for biased strand distribution p-value = 4.26e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATATTGTCTGGCCCGAATCGGTAGATCTGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CACTGGAAAAGCGCGGGATGTTACCGGACAACTGCATTTTGACTCACTGGGGC  >  NC_000913/4394433‑4394720                                                                                                                                                    |                                                                                                                                                 atatTGTCTGGCCCGAATCGGTAGATCTGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCct                                                                                                                                              <  2:635228/151‑1 (MQ=255) atatTGTCTGGCCCGAATCGGTAGATCTGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCct                                                                                                                                              <  1:691714/151‑1 (MQ=255)     tGTCTGGCCCGAATCGGTAGATCTGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCctg‑ct                                                                                                                                          <  1:750712/150‑1 (MQ=255)      gTCTGGCCCGAATCGGTAGATCTGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCctg‑ctg                                                                                                                                         <  1:133190/150‑1 (MQ=255)             ccGAATCGGTAGATCTGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCCGCCTG‑CTGGGTGgaa                                                                                                                                  >  1:120520/1‑150 (MQ=255)                aaTCGGTAGATCTGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGCTAT‑CCCCTCCCGccccctcgcccaa                                                                                                                                    >  2:9133/1‑135 (MQ=255)                   cGGTAGATCTGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑TTCCTCCGCCCCg‑ctggcgggaaacg                                                                                                                               >  2:718179/1‑139 (MQ=255)                          tCTGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGTTAT‑TCCTTCCCGCCCG‑CTGGCCGACAC‑TGGCGCTAcccc                                                                                                                    >  2:177625/1‑150 (MQ=255)                            tGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑TCCCTCCCGCCCG‑CCGGCTGGAAC‑CGgggcgccccc                                                                                                                    >  2:152814/1‑142 (MQ=255)                             gATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCa                                                                                                                   <  1:403/148‑1 (MQ=255)                              aTTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑TCCCTCCCCCCTC‑CCGGCGGAAAA‑TGGGGGCACGCCAgcc                                                                                                                >  2:470113/1‑148 (MQ=255)                                 gttgATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGGTAT‑ACCTTCCGGCCTG‑CCGGCTGGAAC‑AGGCGGCCCGCCAGGGGCgg                                                                                                            >  2:904888/1‑151 (MQ=255)                                 gttgATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCgg                                                                                                            <  1:738937/151‑1 (MQ=255)                                    gATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGGTAT‑CCCCTCCCGCCCG‑CTTGCTGGAAA‑CGGCGCGCCGCCCAGCGCgg                                                                                                            >  2:6208/1‑148 (MQ=255)                                        cgcTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTTATAT‑TCCTTCCCGCCCG‑CTTGCTGGAAA‑AGGCGCCTCGCCAGGCGCgggg                                                                                                          >  2:473644/1‑144 (MQ=255)                                         gctgctCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGATGTTAC‑CCCCCCCCGGCCC‑CTTGCGGAAACGTGGC‑CTACCCCCGGCGCGGGGGTCAAc                                                                                                    >  2:781688/1‑151 (MQ=255)                                            gctCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGc                                                                                                  <  2:299855/150‑1 (MQ=255)                                             ctCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGGTAT‑TCCTTTCCGCCCG‑CTGGCGGGAAC‑AGGCGCCCCGCCCGGCGCGGGGGTGAACGcc                                                                                                 >  1:484309/1‑150 (MQ=255)                                               cGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCCTTCGGCCCG‑CTGGCCGGAAA‑ATGCGGCACGCCCGCCGCCGGGGTCAACGccccc                                                                                              >  2:878578/1‑148 (MQ=255)                                                   aCCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATcaca                                                                                          <  2:381940/151‑1 (MQ=255)                                                      ggTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCCGCCCG‑CTGGGTGGAAC‑TGGCGCTACGCCCGGCGCGGTGGTTAACGCCGATCACAcc                                                                                        >  1:258932/1‑150 (MQ=255)                                                       gTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑TCCTTCCCGCCCG‑CCGGGTGAAAA‑TTGCGCCCCGCCCGGCGCGGGGGTTCAAGCCCATcacaac                                                                                        >  1:133439/1‑147 (MQ=255)                                                          tGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCa                                                                                    <  2:579290/150‑1 (MQ=255)                                                            cGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCCGCCCG‑CTGGCTGTAAC‑TGGCGCTACCCCCGGCGCGGGGGTCAAAGCCCATCACAcccccac                                                                                   >  2:682468/1‑144 (MQ=255)                                                              gCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACtttt                                                                               <  2:71795/151‑1 (MQ=255)                                                                       ccGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTg                                                                      <  2:798918/151‑1 (MQ=255)                                                                               ccATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAg                                                               <  2:133107/150‑1 (MQ=255)                                                                               ccATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAg                                                               <  1:427064/150‑1 (MQ=255)                                                                                    aGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTg                                                          <  1:533308/150‑1 (MQ=255)                                                                                     gCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCCTCCCGCCTG‑CTGGCTGGAAC‑TGGCGCTACGCCCGGCGCGGGGGTCAACGCCGATCCCACCCTCACTTTTTTTTCGCTGAAACCAGGCtt                                                           >  1:668894/1‑148 (MQ=255)                                                                                      ccAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑c                                                      <  1:412293/151‑1 (MQ=255)                                                                                        aGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CAc                                                    <  2:310891/151‑1 (MQ=255)                                                                                        aGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CAc                                                    <  2:482390/151‑1 (MQ=255)                                                                                            aaTCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CACTGGa                                                <  1:346969/151‑1 (MQ=255)                                                                                            aaTCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGGTGGTAT‑CCCCTCCCGCCTG‑CTGGTTGAAAC‑TGGCGCCACCCCAGGCGCGGTGAACAACGCCGATCACAACAACACCTTTTTTCCGGCGAAACCAAGCTTGCttcctcg                                                  >  1:192372/1‑144 (MQ=255)                                                                                             aTCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCCGCCTG‑CTGGCTGAAAA‑TGGCGCTACGCCAGGCGCGGGGGTTAACGCCGATCACACCAACCCTTTTTTTTCGCTGAAACCAAGCTTGCT‑CCCttg                                                 >  1:351008/1‑147 (MQ=255)                                                                                                gACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTTATAT‑CCCTTCCCGCCCG‑CTGGCTGAAAC‑TGGCGCTACGCCCGGCGCGGGGGTCAACGCCGATCACACCATCACTTTTATTTCGCTGAAACCAGGCTTGCT‑CACTGGaaaa                                             >  1:417824/1‑150 (MQ=255)                                                                                                  ccACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CACTGGAAAAgcg                                          <  1:78251/151‑1 (MQ=255)                                                                                                     cGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGTTAT‑CCCCTCCCGCCCGCCGGGCTG‑AAC‑CCGCGCCTCGCCCCGCGCGGGGGGCAACCCCCATCCCCCCCTCACCTTTTTTGCGCTGGAACCAAGCGTGCC‑CACTGGGAAAgccggg                                       >  2:681098/1‑147 (MQ=255)                                                                                                         aaTTCCCATCCTGCGCCGATTGTGGCGGATTATAT‑TCCTTCCCGCCCC‑CTGGCTGAAAA‑CTGCGCTACGCCCGGCGCGGGGGGCAACACCCAACACAACATACCTTTTTTTTCGCTGAAAACAAGCTTGCTCCCCTGGAAAA‑CGCgggg                                     >  1:711000/1‑148 (MQ=255)                                                                                                               cATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CACTGGAAAAGCGCGGGATGTTACCg                             <  2:144097/151‑1 (MQ=255)                                                                                                                aTCCTGCGCCGATTGTGGCGGTTGATAT‑TCCTTCCCGCCTG‑CCGGCTGGAAA‑TGGCGCCACGCCAGGCGCGGGGATTAACGCCGATCACAACACCACTTTTTTTTCGCTGAAAACAGGCCTGCT‑CACTGGAAAAAAGCGGGGTGGTACCgg                            >  1:762106/1‑151 (MQ=255)                                                                                                                     gcgcCGATTGTGGCGGTTGGTATACCCTTCC‑GCCTG‑CCGGCTGAAAC‑CGGCGCGACGCCAGGGGCGGGGGTCAACGCCGCTCACACCCTCACTTTTTTTTCGCTGAAACCAGGCTTGCT‑CCCCGGGAAAAAGGGGGGGGTTACCCGGCaa                        >  2:43348/1‑150 (MQ=255)                                                                                                                              gtgGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CACTGGAAAAGCGCGGGATGTTACCGGACAACTGCATTTTg              <  2:259723/151‑1 (MQ=255)                                                                                                                                ggCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CACTGGAAAAGCGCGGGATGTTACCGGACAACTGCATTTTGa             <  2:865978/150‑1 (MQ=255)                                                                                                                                   ggTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CACTGGAAAAGCGCGGGATGTTACCGGACAACTGCATTTTGACTc          >  1:161171/1‑150 (MQ=255)                                                                                                                                          at‑CCCTTCCGGCCTG‑CTGGTTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CACTGGAAAAGCGCGGGATGTTACCGGACAACTGCATTTTGACTCACTGGGGc  <  2:219760/151‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                 ATATTGTCTGGCCCGAATCGGTAGATCTGATTGTTGATGCGCTGCTCGGTACCGGTTTGCGGCAAGCGCCCCGCGAATCCATTAGCCAGTTAATCGACCACGCTAATTCCCATCCTGCGCCGATTGTGGCGGTTGATAT‑CCCTTCCGGCCTG‑CTGGCTGAAAC‑TGGCGCTACGCCAGGCGCGGTGATCAACGCCGATCACACCATCACTTTTATTGCGCTGAAACCAGGCTTGCT‑CACTGGAAAAGCGCGGGATGTTACCGGACAACTGCATTTTGACTCACTGGGGC  >  NC_000913/4394433‑4394720

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑