Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	501,564	0	A	C	46.0%	79.2 / 11.7	50	*559E (TAA→GAA)	ybaL	inner membrane putative NAD(P)‑binding transporter
Reads supporting (aligned to +/- strand):  ref base A (23/4);  new base C (0/23);  total (23/27)
Fisher's exact test for biased strand distribution p-value = 1.68e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCC‑AGATAAGGCGTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATGGGCGCGGGCAATAATCTC  >  NC_000913/501417‑501711                                                                                                                                                      |                                                                                                                                                    cTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCC‑AGATAAGGCGTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTAccc                                                                                                                                                  >  1:457905/1‑151 (MQ=255) cTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCC‑AGATAAGGCGTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTAcc                                                                                                                                                   <  2:136630/150‑1 (MQ=255)  tGGGATCGTTAAGTTATCGTCGGTTCGTAGGCC‑AGATAAGGCGTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTAcccc                                                                                                                                                 >  2:665925/1‑151 (MQ=255)   gggATCGTTAAGTTATCGTCGGTTCGTAGGCC‑AGATAAGGCGTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTAccc                                                                                                                                                  <  1:437893/149‑1 (MQ=255)             aGTTATCGTCGGTTCGTAGGCC‑AGATAAGGCGTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTc                                                                                                                                      <  2:189746/151‑1 (MQ=255)                tATCGTCGGTTCGTAGGCC‑AGATAAGGCGTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCAcc                                                                                                                                   >  1:601406/1‑151 (MQ=255)                             gaGGCCAAGAAAAGGCTTTCCCCCCGCATCTGGCTTTTGGCTCTCGATGCTTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATTTTTTTCATATTTTACATCCGGCACCCACCGTTTCCCCCGTCCCCACCTCACCCGCCGGTGGCGt                                                                                                                       <  2:580777/150‑1 (MQ=37)                                  c‑AGATAAGGCGTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTcc                                                                                                                   >  2:69192/1‑149 (MQ=255)                                      aTAAGGCGTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCcagc                                                                                                                >  2:15886/1‑149 (MQ=255)                                          ggCGTTCCCGCCGCATCTGGCTTTTGGCTCTCGTTGCCTGATGCGACGCGGGCGCTTTTTATCATCCCT‑ACATTTTTTTAATATTTTACACCCGGCAACCCCCTTTTCCCCCGTCCCCCCCCCCCCCGCCGGTGGCGTTTCCAGCAGTTc                                                                                                           <  1:70477/150‑1 (MQ=255)                                             gTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGc                                                                                                       >  2:700540/1‑151 (MQ=255)                                                    ctgaatgactcttttGGCTCTCGTCGCCTTTTGGGCGGCGGGCGCTTTTTATCTTCCTT‑ATATTTTTCTTATATTTACCCCCGGGCACCCCCCTTTCACCCCTTCCCCCCCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGt                                                                                                  <  2:531210/137‑1 (MQ=255)                                                    ccgcTTCTGCGATTTGGCTATGGATCCCGGATGCGGCCCGGGCACGTCTTACCA‑GCCTAAAATATTTTTCATTTTTTCCATCGCGCAACCCCCTTTTCCCGCGTCACCTCCGCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTa                                                                                                 <  2:595617/150‑1 (MQ=255)                                                    ccgcATCTGGCATTTGGCTCTCGTTTCCTGAGGCGCCGCTGGCGCTTCTTATCATGCCT‑ACATTTTTTTAATATTTTACATCCGGCACCCACCTTTTCCCCGGTCCCCACCTCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTa                                                                                                 <  1:84873/150‑1 (MQ=255)                                                         tCTGCCTTTTGCCTCTCGTTCCCTGATGCGACGCTGGCGCGTTTTATCTTGCTT‑AAATTTTTTTCATTTTTTACATCCGCCACCCCCCTTTTCCCCCGCCCCCCCCTCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACgg                                                                                              <  1:715973/148‑1 (MQ=255)                                                               ttttGGCTCTGGCTCCCTGATGCGCCGCTGGGCCGTTTTATCACGCCA‑ACTTATTTTTCATTTTTTACATCCGGCACCCCCCTTTTCCCCCGTCACCCCCTCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACg                                                                                               <  2:326153/140‑1 (MQ=255)                                                                   ggCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACACCCGGCACCCACCGTTTCCCCCGTCCCCACCTCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCt                                                                                 <  1:761666/151‑1 (MQ=255)                                                                              ccTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACt                                                                      >  1:526387/1‑151 (MQ=255)                                                                               cTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACt                                                                      >  1:568088/1‑150 (MQ=255)                                                                                    gCGACGCGGGCGCGTCTTATCATGCCT‑ACATATTTTTCTTATTTTACACCCGGCAACCCCCGTTTCCCCCGTCCCCCCCCCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCt                                                                  <  1:619738/149‑1 (MQ=255)                                                                                       aCGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTc                                                             >  2:90839/1‑151 (MQ=255)                                                                                        cGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCg                                                            >  1:582591/1‑151 (MQ=255)                                                                                         gCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGc                                                           >  1:76180/1‑151 (MQ=255)                                                                                         gCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGc                                                           >  2:476095/1‑151 (MQ=255)                                                                                         gCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGc                                                           >  2:557766/1‑151 (MQ=255)                                                                                          cTGCCGCTTTTTTTCATGCCT‑CAATTTTTTTCATATTTTACACCCGGCAACCCCCTTTTCCCCCGTCCCCCCCCCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGa                                                                <  2:439185/145‑1 (MQ=255)                                                                                            gagccgTCTTACCATGCCT‑CAGTTTTTTTCTTTTTTTCCCCCCGTACCCCCCCTTTTCCCCCTTCCCCCCCGCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGcgcc                                                        <  2:628615/147‑1 (MQ=255)                                                                                              cgcgTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGcaccac                                                      >  2:251768/1‑151 (MQ=255)                                                                                                  ttttATCATCCCT‑ACATTTTTTTTATATTTTCCACCCGCCACCCCCCTTTTCCCCCGCCCCCCCCCCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGcaccac                                                      <  2:179460/145‑1 (MQ=255)                                                                                                    ttATCATGCCT‑ACATATTTTTCATATTTTCCATCCGGAACCCCCCGTTTCCCCCGCCACCCCCTCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTc                                                  <  1:643925/149‑1 (MQ=255)                                                                                                     tATCATGCCT‑ACATTTTTTTCATTTTTTCCACCCGGCACCCCCCTTTTCCCCCGCCCCCCCCTCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGt                                                    <  1:296294/146‑1 (MQ=255)                                                                                                          tGCCT‑ACATATTTTTAATATTTTACATCCGGCACCCCCCTTTTCCCCCGCCCCCCCCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTc                                                  <  1:418802/143‑1 (MQ=255)                                                                                                            ccT‑ATATTTTTTTTATTTTTTACATCCGACACCCCCCGTTCCCCCCGCCCCCCCCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGata                                           <  2:677701/148‑1 (MQ=255)                                                                                                              t‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGc                                      >  2:734562/1‑151 (MQ=255)                                                                                                                          cATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGt                           >  2:765451/1‑151 (MQ=255)                                                                                                                          cATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGt                           >  1:689582/1‑151 (MQ=255)                                                                                                                             atTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCAt                        >  2:431327/1‑151 (MQ=255)                                                                                                                              ttttACACCCGGCAACCCCCTTTTCCCCCGCCCCCCCCCCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCAt                        <  1:195997/150‑1 (MQ=255)                                                                                                                              ttttACACCCGCCACCCCCCTTTTCCCCCGCCCCCCCCCCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCAt                        <  1:381099/150‑1 (MQ=255)                                                                                                                                ttACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAAt                     >  2:627206/1‑151 (MQ=255)                                                                                                                                 tACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATg                    >  2:460981/1‑151 (MQ=255)                                                                                                                                   cATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATggg                  >  1:474047/1‑151 (MQ=255)                                                                                                                                      ccGGCACCCCCCTTTTCCCCCTCCCCCCCCTCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATg                    <  2:641861/146‑1 (MQ=255)                                                                                                                                           accccccttttCCCCGGTCACCACCTCCGCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATGGGCGCgg             <  1:207729/140‑1 (MQ=255)                                                                                                                                             cccccGTTTCCCCCGTCCCCCCCCCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATGGGCGCggg            <  1:312872/144‑1 (MQ=255)                                                                                                                                             cccccGTTTCCCCCGCCACCCCCTCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATGGGCGCGGGCaat        <  1:423044/148‑1 (MQ=255)                                                                                                                                                ccGTTTCCCCCGCCCCCCCCCCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATGGGCGCGGGCaataa      <  2:229164/150‑1 (MQ=255)                                                                                                                                                 cGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATGGGCGCGGGCAATAAtc    >  2:216774/1‑151 (MQ=255)                                                                                                                                                   tttCCCCCGTCCCCCCCCCCCCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATGGGCGCGGGCAATAAtct   <  2:762682/150‑1 (MQ=255)                                                                                                                                                   tttACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATGGGCGCGGGCAATAAtctc  >  1:162193/1‑151 (MQ=255)                                                                                                                                                      |                                                                                                                                                    CTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCC‑AGATAAGGCGTTCACGCCGCATCTGGCATTTGGCTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCT‑ACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGCGTTTCCAGCAGTTCCAGCATGGTACGGGCGATTTCACGCTCGCCCATCACTACCTGATTCGCACCACGTTCGGTGATATACGCCACTTCATCGTCATAATGGGCGCGGGCAATAATCTC  >  NC_000913/501417‑501711

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: ‑