Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	436,516	0	C	A	41.7%	63.5 / 19.2	49	Q295K (CAA→AAA)	thiL	thiamine monophosphate kinase
Reads supporting (aligned to +/- strand):  ref base C (20/8);  new base A (0/20);  total (20/29)
Fisher's exact test for biased strand distribution p-value = 1.90e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCCATGTTGAACCGGAACAGGCGCTGCGCTGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTGAAGATGAGTAATCCGTGGCATCTACTTGC  >  NC_000913/436373‑436662                                                                                                                                                |                                                                                                                                                   gCCATGTTGAACCGGAACAGGCGCTGCGCTGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGAc                                                                                                                                             <  2:351485/151‑1 (MQ=255)  ccATGTTGAACCGGAACAGGCGCTGCGCTGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGAcc                                                                                                                                            >  2:470130/1‑151 (MQ=255)   cATGTTGAACCGGAACAGGCGCTGCGCTGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGAccg                                                                                                                                           >  1:326869/1‑151 (MQ=255)             cGGAACAGGCGCTGCGCTGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCg                                                                                                                                  >  2:355924/1‑150 (MQ=255)              ggAACAGGCGTGGCGCTGGGCCCTCTCGGGGGGTGAAGATTACGGGTTGTTTTTCCCGGTGCCGGACCTGACCCGGGGCGCGCTGGTTGTGGCCCTCGGCCCCCTGGGCGTACCGTTTCCCTGTAGCGGGCAAATGACCGCCGatat                                                                                                                                    <  2:589661/147‑1 (MQ=255)                aaCAGGCGCTGCGCTGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTTTTTCACTGTGCCGGAACTGACCGGTGGCGCGCTGGATGTGGCTCCCGGACACCGGGGCGTCCCGTTTCCCTGTATCGGGAAAATGACCGCCGATATCGAAgg                                                                                                                              <  1:938654/151‑1 (MQ=255)                    ggCGCTGCGCTGGGCGCTCTCGGGGGGTGAAGATTACGAGTTGTTTTTCACTGGGCCGAAACTGACCCGGGGGGCGCTGGATGTGGCCCTCGGACACCGGGGCGTCCCTTTTCCCTGTAGGGGGCAAATGACCGCCGATATCGAAGGGCtt                                                                                                                          <  2:113788/151‑1 (MQ=255)                            ggtgGGGGCTCTCGGGGGGTGAAGATTACGAGTTGTTTTTCACTGTGCGGGAACGGAACGGTGGCGCGGTGGTGGTGGCTCTCGGACACCGGGGCGTCCCTTTTCCCTGTTTGGGGCAAATGACCGCCGATATCGAAGGGCttt                                                                                                                         <  1:439209/142‑1 (MQ=255)                              ggggCGCTGTGGGGGGGTGAATATTAGGAGTTTTGTTCCCCTGTGCGGAAACTGAACGGGGCCGCGTGGGTTGTGCCCCTCGGACCCTGGGGGGTCCCGTTTCCTTGTATCGGGAAAAGGACCGCCGATATCGAAGGGCTTTGTTTTATTc                                                                                                                <  1:192148/150‑1 (MQ=255)                               gggCGCTTTGGGGGGGTGAAGATTACGGGTTGTGTGCCCGTGGGCGGGAAGGGACCCTGGGGGCGTTGGATGGGTTTCTCGGAGATGGGGCCCTACCGTTTTCTTGTTTGGGACAATTGACCGCCGATATCGAAGGGCTTTGTTTTATTc                                                                                                                <  1:775547/150‑1 (MQ=255)                               gggCGCTCTCTGGGGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACCCCTGGGCGTACCTTTTCCCTGTATCGGGAAAATGACCGCCGATATCGAAGGGCTTTGt                                                                                                                       <  1:51398/143‑1 (MQ=255)                                ggCGCTCTCTGGGGGTGAAGATTCCGAGTTGTGTTTCACTGTGCCGGAACTGACCGGTGGCGCGCTGGATGTGGCTCTCGGACACCGGGGCGTCCCGTTTCCTTGTATCGGGAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGt                                                                                                              <  1:870636/151‑1 (MQ=255)                                          ggCGGTGAAGATTACGTGTTGTGTTTCCCTGTGCCGGAACTGACCCGTGGCGCGTTGGATGTGGCTCTCGGACCCCTGGGCGTCCCTTTTCCCTGTAGCGGGCAAAGGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAAc                                                                                                    <  2:376603/151‑1 (MQ=255)                                             ggTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTg                                                                                                 >  2:966211/1‑151 (MQ=255)                                              gTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGt                                                                                                >  1:54775/1‑151 (MQ=255)                                               tGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGtt                                                                                               >  1:355977/1‑151 (MQ=255)                                                  aGATTATGCTTTGTGTTCCACTGTGCGGAAACGAACCCGTGGCGCGCTGGATGTGCCCCTCGCACCGCGGGGCGTCCCTTTTACCGGTTTGGGCAAAATAACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACa                                                                                            <  2:246183/151‑1 (MQ=255)                                                   gattaggttttGTTTTTCTCTGTGCGGGACCTGAGCGGTGGCGGGTTGGATGTGGCTCTGGACCACGTGGGGGTCCCGTTTGCGTGTTTCGGTTAAAGGGCCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACa                                                                                            <  1:864098/141‑1 (MQ=255)                                                     ttACGTGTTGTTTTTCACTGTGCCGAAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCGGGGCGTCCCTTTTCCCTTTATGGGAAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACa                                                                                            <  2:764433/148‑1 (MQ=255)                                                     ttACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACAtt                                                                                          >  2:669966/1‑150 (MQ=255)                                                      tACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACAtt                                                                                          >  1:91500/1‑149 (MQ=255)                                                          aGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTg                                                                                    >  2:681328/1‑151 (MQ=255)                                                          aGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTg                                                                                    >  1:800822/1‑151 (MQ=255)                                                             tgtgTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGa                                                                                  >  1:85367/1‑150 (MQ=255)                                                             tggttttctcggggCCGGAACGAACCCGTGGCGCTCTGGATGGGGCTCTCGAACGCTTGGGCGTACCTTTTACCTTTTCCGGGAAATTGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTgg                                                                                   <  1:653581/136‑1 (MQ=255)                                                                    ccttctgCCGAACCTGACCCGTGGCCGGCTGATTGGGGCTCTCGGACACCGGGCCGTACGTTTTCCTTTTAGGGGGAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGatat                                                                          <  2:352019/146‑1 (MQ=255)                                                                    cACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGatat                                                                          >  1:442889/1‑151 (MQ=255)                                                                       tgtgCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGAc                                                                       >  2:27576/1‑151 (MQ=255)                                                                           ccGGAACTGAACCGTGGCGGGGTGGATGTGGCTCTCGGACACCGGGGAGTACCTTTTCCCTGTATCGGGAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGa                                                                        <  2:587458/146‑1 (MQ=255)                                                                           ccGGAACGAACCCGTGGGGCGCGGGAGGTGGCTCTCGGACTCGGGGGGTTCCCTTTTCCCTTTATGGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCa                                                                     <  2:618190/149‑1 (MQ=255)                                                                           ccGAAACGGACCGGTGGGGCGTTGGATGTGGCTCTCGGACACTGGGGCGTACCTTTTTCCTGTTTGGGAAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGat                                                                            <  1:761858/142‑1 (MQ=255)                                                                            cGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCAttt                                                                  >  1:437292/1‑151 (MQ=255)                                                                            cGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCAttt                                                                  >  1:769637/1‑151 (MQ=255)                                                                             ggAACTGAACGGGGGCGCGCTGGATGGGGCTCTCGGCCCCCGGGGCGTCCCGTTTACCTGTATGGGGAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCAtttt                                                                 <  1:545285/151‑1 (MQ=255)                                                                               aaCTGAACCGGGGCGCGTTGGATGTGCCTCTCGGACCCCTGGGCGTACCTTTTCCCTGTATCGGGAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGc                                                               <  1:855061/151‑1 (MQ=255)                                                                                       cGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCAt                                                       >  1:585826/1‑151 (MQ=255)                                                                                        ggggCGCGGTGGATGTGGCTCCCGGACCCCGGGGCGTCCCGTTTCCCTTTACGGGGAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCAt                                                       <  2:768526/148‑1 (MQ=255)                                                                                                          ctctGGGACCCTGGGGTGTCCTGTTTCCTTGTATGGGGAAATTAACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGaaaa                                       <  2:809693/148‑1 (MQ=255)                                                                                                            ctgggACCCCGGGGCGTCCCTTTTCCTTGTATGGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGt                                     <  1:792954/145‑1 (MQ=255)                                                                                                               ggACCCCTGGGCGTCCCGTTTCCCTGTATCGGGAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGc                                  <  1:736603/148‑1 (MQ=255)                                                                                                               ggACCCCGGGGCGTCCCGTTTCCCTTTAGGGGGAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTg                               <  1:488062/151‑1 (MQ=255)                                                                                                                  ccccTGGGCGTCCGTTTTCCCTGTAGGGGAAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTGaa                             <  2:500338/148‑1 (MQ=255)                                                                                                                       gggCGTCCCTTTTCCCTGTATCGGGAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTGAAGATGAg                       <  1:186108/151‑1 (MQ=255)                                                                                                                       gggCGTACTGTTTACCTGTGGGGGGAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTGAAGATGAg                       <  2:18688/151‑1 (MQ=255)                                                                                                                            tACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTGAAGATGAGTAATc                  >  1:247816/1‑151 (MQ=255)                                                                                                                            tACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTGAAGATGAGTAATc                  >  1:961592/1‑151 (MQ=255)                                                                                                                                 tttCCCTGTATCGGAAAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTGAAGATGAGTAATCCGTg              <  1:475324/150‑1 (MQ=255)                                                                                                                                 tttACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTGAAGATGAGTAATCCGTgg             >  2:452049/1‑151 (MQ=255)                                                                                                                                            cGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTGAAGATGAGTAATCCGTGGCATCTACTTGc  >  1:544185/1‑151 (MQ=255)                                                                                                                                                |                                                                                                                                                   GCCATGTTGAACCGGAACAGGCGCTGCGCTGGGCGCTCTCTGGCGGTGAAGATTACGAGTTGTGTTTCACTGTGCCGGAACTGAACCGTGGCGCGCTGGATGTGGCTCTCGGACACCTGGGCGTACCGTTTACCTGTATCGGGCAAATGACCGCCGATATCGAAGGGCTTTGTTTTATTCGTGACGGCGAACCTGTTACATTAGACTGGAAAGGATATGACCATTTTGCCACGCCATAAAGATGTCGCGAAAAGTCGCCTGAAGATGAGTAATCCGTGGCATCTACTTGC  >  NC_000913/436373‑436662

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑