Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,574,051	0	G	T	42.2%	62.2 / 16.5	45	V384V (GTC→GTA)	pqqL	putative periplasmic M16 family zinc metalloendopeptidase
Reads supporting (aligned to +/- strand):  ref base G (9/17);  new base T (19/0);  total (28/17)
Fisher's exact test for biased strand distribution p-value = 4.00e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GTTTCGAAAGTTGATATGTCTCTTCCGGCGACAAGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCGCAGCATCCTGCATATTATCGTCTCGTGCATTTACACGGAAAAACAGCGACTGATAATCGGGTGCAATTTTAACGCTGC  >  NC_000913/1573906‑1574199                                                                                                                                                  |                                                                                                                                                       gTTTCGAAAGTTGATATGTCTCTTCCGGCGACAAGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGAcatc                                                                                                                                                   <  1:11308/151‑1 (MQ=255)  tttCGAAAGTTGATATGTCTCTTCCGGCGACAAGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAAAATTGTca                                                                                                                                                     >  1:259016/1‑148 (MQ=255)    tCGAAAGTTGATATGTCTCTTCCGGCGACAAGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGAATTTAc                                                                                                                                                      >  1:105649/1‑145 (MQ=255)      gAAAGTTGATATGTCTCTTCCGGCGACAAGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGAcatca                                                                                                                                                  >  1:658742/1‑147 (MQ=255)                    ctctTCCGGCGACAAGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGGAGGTTTTTcatccaccggtttttttg                                                                                                                                     >  1:439935/1‑132 (MQ=255)                          cGGCGACAAGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGGAGATTTGAAATCATCGAGGTCTTTAGCAGaaaaaac                                                                                                                           >  2:360573/1‑148 (MQ=255)                                cAAGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTTGGTTTTCAATTATCGGGTTCTTCTACAGAAAAAACa                                                                                                                          >  2:232968/1‑145 (MQ=255)                                  aGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGGAGATTTTAAATTATCGGGTTTTTTAGCAGAAAAAACa                                                                                                                          >  1:451694/1‑143 (MQ=255)                                  aGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGGAGATTTTAAATCATCGAGTTCTTTTACAGAAAAAACAAGCTg                                                                                                                     >  1:671367/1‑148 (MQ=255)                                     aCGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AAt                                                                                                              <  2:697427/151‑1 (MQ=255)                                     aCGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGGAGATTTGACATCATCGCGGTTTTTCGCCGAAAAACCAAGCTGAt                                                                                                                   >  2:486298/1‑147 (MQ=255)                                       ggCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATgg                                                                                                            <  1:289495/151‑1 (MQ=255)                                        gCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGt                                                                                                           <  2:159835/151‑1 (MQ=255)                                          gTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGGGGATTTTGCCTCCACCAGTTCTTTACCACAAAAAACACGCTGAAC‑AAttggt                                                                                                          >  2:186588/1‑146 (MQ=255)                                              tattTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCa                                                                                                      <  2:58179/150‑1 (MQ=255)                                                     tGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTTACCACATCGAGGTCTTTATCAGAAAAAACAATCTGATT‑AAAGGGTGCCAACACTGcc                                                                                              >  2:494035/1‑151 (MQ=255)                                                     tGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGAATTTGCATCATCGGGGTTTTCAGCAGAAAAAACACGCTGATC‑AATTGTTGCCCACACTGcc                                                                                              >  2:191065/1‑151 (MQ=255)                                                          tGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGGAGAATTGACATCATCGAGTTTTTTAGCAGAAAAAACAAACTGATCAAATGGTGGCC‑ACTCTTCCA‑tt                                                                                          >  1:930013/1‑149 (MQ=255)                                                           ggATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTaa                                                                                        <  1:578155/150‑1 (MQ=255)                                                           ggATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAAt                                                                                       <  2:245872/151‑1 (MQ=255)                                                              tGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGGAGATTTGTCATCAACCGGATTTTTTGCAGAAAAAACACGCCGATC‑AATTGTTTGCCACACTGCCC‑TTTATgt                                                                                     >  1:597081/1‑149 (MQ=255)                                                               gCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCAt                                                                                   <  2:316295/151‑1 (MQ=255)                                                                ccAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGGAGAATTGTAAACATCGAGGTTTTCCGCAGAAAAAACACGCTGATC‑AATGGGTGCCAACTCTGCCC‑TTAATgtctt                                                                                  >  1:761059/1‑147 (MQ=255)                                                                 cAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTTATATTATCGAGGTATTCAGCCGAAAAAACAAGCCGATT‑AAAGGTTTCCAACTCTGCCC‑TTAATGAAtt                                                                                  >  2:346086/1‑150 (MQ=255)                                                                 cAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGGAGATTTTACATCATTGAGGTCTTTAGCAGAAAAAACAAACTGGTT‑AAAGGGTGCCAAATCTTCCC‑TTTAttgatt                                                                                  >  2:583265/1‑145 (MQ=255)                                                                      gACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACAATATCGCGTTTTTTATCAGAAAAACCACGCTGATC‑AATGGTTGCCCACCCTGCCA‑TTTATGccatctcacc                                                                            >  2:59140/1‑142 (MQ=255)                                                                       aCTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTTACATCATCGCGTTCTTCAGCCGAAAAAACATGCTGATC‑AATGGTTGGCAACTCTGCCA‑TTTATGCATTTgcagc                                                                            >  2:288463/1‑150 (MQ=255)                                                                       aCTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCgcagca                                                                           <  1:128961/151‑1 (MQ=255)                                                                                    cGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCGCAGCATCCTGCAtattat                                                              <  1:327202/151‑1 (MQ=255)                                                                                             cGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCGCAGCATCCTGCATATTATCGTCTCGTg                                                     <  1:73647/151‑1 (MQ=255)                                                                                             cGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCGCAGCATCCTGCATATTATCGTCTCGTg                                                     <  2:527958/151‑1 (MQ=255)                                                                                                  aGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCGCAGCATCCTGCATATTATCGTCTCGTGCAttt                                                <  1:968279/151‑1 (MQ=255)                                                                                                    cTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGATATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCACCTCTGCCA‑TTAATGCATTCGCAGCTTCCTGCATATTATCGTCTCGTGCAttt                                                <  1:224889/149‑1 (MQ=255)                                                                                                        cTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGAATTTACATCATCGAGGTCTTTAGCAGAAAAAACATGCTGATC‑AATTGTTGCCCACCCTTCCC‑TTTATTCATTTCCAGCATCCTGCATATTTTCGTCTCGTGCCTTTTCACgg                                          >  2:139755/1‑151 (MQ=255)                                                                                                          gATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCGCAGCATCCTGCATATTATCGTCTCGTGCATTTACACGGa                                         <  2:658954/150‑1 (MQ=255)                                                                                                           aTCAACCGCATTTTTCAGCCAGGTGAGGCGGGGAGATTTTACATCATCGAGTTCTTCAGCAGAAAAAACAAGCTGATC‑AATGGGTGCCAACTCTTCCC‑TTAATGCATTCGCAGCATCCTGCATATTATCGTCTCGTGCATTTACACGGaa                                        >  2:500568/1‑150 (MQ=255)                                                                                                             cAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCGCAGCATCCTGCATATTATCGTCTCGTGCATTTACACGGaaaaa                                     <  2:714105/151‑1 (MQ=255)                                                                                                              aaCCGCATTTTTCAGCCAGGTGAGGCGGGGAGAATTTACATCATCCGGTTTTTTTGCAGAAAAAAAAAGCTGGTC‑AATGGGTGGCAAACCTGCCC‑TTTATTCAATCGCCGCCTCCTGCATAATTTTGTTTCCTGCATTTAAACGGgaaaa                                     >  1:128215/1‑150 (MQ=255)                                                                                                               aCCGCATTTTTCAGCCAGGTGAGGCGGGTTGATTTTACATCCACCAGATTTTTTGCACAAAAACCAAGCTGATT‑AATGGGTGCCAAATCTTTCATTTATTGCTTTC‑CAGCACCCCTCATATTTTCGTTTCCTGCCTTTTAACGGgaaaa                                     >  1:260749/1‑149 (MQ=255)                                                                                                                  gCATTTTTCAGCCAGGTGAGGCGGGGAGATTTTACATCCTCGAGGTTTTTCTCAGAAAAAACATGCTGATC‑AATGGGTTCCAACTCTGCCC‑TTTATGCATTCCCAGCATCCTGCATATTTTCGTCTCGTGCATTTTCACGGgaaaa                                     >  2:674586/1‑146 (MQ=255)                                                                                                                   cATTTTTCAGCCAGGTGAGGCGGGTAGATTTTTCATCATCGAGGTTTTCAGCAGAAAAAACATGCTGATC‑AATGGTTGCCAACCCTTCCC‑TTAATGCATTCGCCGCATCCTGCATATTATTGTCTCGTGCATTTTCACGGaaaaaaa                                   >  2:505422/1‑145 (MQ=255)                                                                                                                    aTTTTTCAGCCAGGTGAGGCGGGGAGATTTTTCATCCTCGAGTTTTTTCACCGAAAAAACAAGCTGATC‑AAAGGTTGCCAACTCTGCCA‑TTTATGCATTTCCAACATCCTGCCTATTTTCGTCTCCTGCATTTTCACGGaaaaa                                     >  1:125596/1‑144 (MQ=255)                                                                                                                    aTTTTTCAGCCAGGTGAGGCGGGGAGATTTTACATCATCGAGTTCTTTTGCAGAAAAAACAAACTGATC‑AATGGTTGTCCACTCTGCCA‑TTAATGCATTCTCAGCATCCTGCATATTTTCGTCTCGTGCATTTTCACGGGAAAACAGCGa                               >  2:102292/1‑150 (MQ=255)                                                                                                                             ccAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCGCAGCATCCTGCATATTATCGTCTCGTGCATTTACACGGAAAAACAGCGACTGATAATCg                     <  1:805548/151‑1 (MQ=255)                                                                                                                                                ttGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCGCAGCATCCTGCATATTATCGTCTCGTGCATTTACACGGAAAAACAGCGACTGATAATCGGGTGCAATTTTAACGCTgc  >  1:479494/1‑151 (MQ=255)                                                                                                                                                  |                                                                                                                                                       GTTTCGAAAGTTGATATGTCTCTTCCGGCGACAAGAACGGCGTATTATTTAATGAGCTGGATGCCAGGCGACTGGTCAGCATACGTAAATCACGTTCAGCTTGCTGATCAACCGCATTTTTCAGCCAGGTGAGGCGGGTAGATTTGACATCATCGAGTTCTTCAGCAGAAAAACCATGCTGATC‑AATGGTTGCCAACTCTGCCA‑TTAATGCATTCGCAGCATCCTGCATATTATCGTCTCGTGCATTTACACGGAAAAACAGCGACTGATAATCGGGTGCAATTTTAACGCTGC  >  NC_000913/1573906‑1574199

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑