Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,621,118	0	A	C	42.9%	78.8 / 12.6	49	V7G (GTG→GGG)	eamA	cysteine and O‑acetyl‑L‑serine efflux system
Reads supporting (aligned to +/- strand):  ref base A (23/5);  new base C (0/21);  total (23/26)
Fisher's exact test for biased strand distribution p-value = 2.87e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTTTCGGTCGTGCGACAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCG  >  NC_000913/1620972‑1621262                                                                                                                                                     |                                                                                                                                                 cTTTCGGTCGTGCGACAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACAcccc                                                                                                                                              >  1:852916/1‑151 (MQ=255)      ggTCGTGCGACAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCtt                                                                                                                                         >  1:774787/1‑151 (MQ=255)          gTGCGACAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTcg                                                                                                                                     <  1:836144/151‑1 (MQ=255)            gCGACAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTcgcg                                                                                                                                   >  2:73669/1‑151 (MQ=255)                cAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACAt                                                                                                                               >  1:90185/1‑151 (MQ=255)                cAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACAt                                                                                                                               >  1:521509/1‑151 (MQ=255)                    aaaGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCt                                                                                                                            >  2:56679/1‑150 (MQ=255)                    aaaGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCt                                                                                                                            >  1:649337/1‑150 (MQ=255)                    aaaGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTa                                                                                                                           <  1:936353/151‑1 (MQ=255)                     aaGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTAc                                                                                                                          >  2:487109/1‑151 (MQ=255)                        aTAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGc                                                                                                                       <  1:821127/151‑1 (MQ=255)                            ccGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCctc                                                                                                                    <  1:487102/150‑1 (MQ=255)                                aaaaGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCAAAAAATTTAGCCCCCATACGCCCACTCCCAGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAAt                                                                                                               <  2:271425/151‑1 (MQ=255)                                     cGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCATTTTGATGACCACAAAATTTAGCCCCCATACGACCCCTACCAGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCa                                                                                                           <  2:953708/150‑1 (MQ=255)                                      gACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATc                                                                                                         >  1:633568/1‑151 (MQ=255)                                         cAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCttt                                                                                                      >  2:219958/1‑151 (MQ=255)                                          accATAAAGCGCAACCCGG‑ACACCAACGGGGTGGGCATT‑TTATGAACCCCTACTTTGTGTACAAAAAAATTTGACCCCCATACGCCCACTCCCAGTACCGCCAACCCCCCATTTTTGCGCGACATTCTTCCGCCTCTGAATTTCATCtt                                                                                                       <  1:465907/147‑1 (MQ=255)                                               aaaGCGCAAACCGC‑CCAACTTCAGGGGGGGAATG‑TTATAAAGCCCCTCTTTGAGGACCAAAAAATTTCGCCCCCATACGCCCACTACCAGTAGCCCCAACCCCCCATCTTTGCGCGAAATTCTACCGCCTCTGAATTTCATCgttt                                                                                                     <  1:280175/146‑1 (MQ=255)                                                     gcaaCCGGCCCAGCACCAGCGGTGG‑ATGTTTATATTCCCCAACTTGGATGACCAAAAAATTAACCCCCCATACGCCCTTTCCCAGTAGCGCAAACCCCCCATCTTTTCGCGACATCCTACCGCCTCTGAATTTCATCTTTTGTAAGCa                                                                                              <  2:413880/146‑1 (MQ=255)                                                            g‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTTATCTTTTGTAAGCAATCAACTTAGc                                                                                   >  2:656678/1‑151 (MQ=255)                                                              ccggcagcgggggTGGCATG‑TTATAAAGCCCCCCTTTGATGACCAAAAAATTTAGCCCCCATACGCCCCCTACCAGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGc                                                                                   <  1:821945/139‑1 (MQ=255)                                                              ccAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCt                                                                                  >  2:491844/1‑151 (MQ=255)                                                                      aGCGGTGGCATT‑TTATGAACCCCCTCTTTGATGACCACAAAATTTAGCCCCCATACGCCCACTACCAGTAGCGCCAACCCCCCATCTTTTCGCGACTTTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTa                                                                           <  1:178681/150‑1 (MQ=255)                                                                       gCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACt                                                                         >  2:249863/1‑151 (MQ=255)                                                                         ggTGGCATG‑TTATGAACCCCCACTTTGATAACCACAAAATTTACCCCCCATACGCCCACTACCAGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACttt                                                                       <  2:675356/151‑1 (MQ=255)                                                                         ggTGGAATG‑TTATGAAGCCCCACTTTGATGACCAAAAAATTTAGCCCCCATACGACCACTCCCAGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACt                                                                         <  2:409189/149‑1 (MQ=255)                                                                          gTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAATTTTACCCCCCATACGCCCCCTCCCAGTAGCGCCACCCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTAc                                                                          <  1:505071/147‑1 (MQ=255)                                                                              cATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCttt                                                                  >  2:693506/1‑151 (MQ=255)                                                                              cATG‑TTATGAAGCCCCACTTTGATGACCAAAAAATTTAGCCCCCATACGACCACTCCCAGTAGCGCCAACCCCCCATTTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCttt                                                                  <  1:15621/151‑1 (MQ=255)                                                                                 ttttATGAAGCCCCTCTTTGATGACCAAAAAATTTAGCCCCCATACGACCCCTCCCAGTAGCGCCACCCCCCCATTTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTa                                                                 <  1:588174/148‑1 (MQ=255)                                                                                   taaTGAAGCCCCACTTTAATAACCACAAAATTTAGCCCCCAACCGACCCCTCCCAGAGGCCCAAACCCCCCATCTTTTCGGGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAAc                                                               <  2:537199/148‑1 (MQ=255)                                                                                     ataaacccccACTTTGATGACCACAAAATTTACCCCCCATACGCCCACTACCAGTAGCCCCAACCCCCAATCTTTCCGCGCTATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACa                                                              <  1:567434/143‑1 (MQ=255)                                                                                      tGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGtt                                                           >  1:275687/1‑151 (MQ=255)                                                                                        aacccccccTTTGATTACCACAAAATTTACCCCCCATACGCCCCCTACCAGTAGCGCCAACCCCCCATCTTTTCGCGATATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGtt                                                           <  1:366006/146‑1 (MQ=255)                                                                                             ccACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGt                                                    >  2:10889/1‑151 (MQ=255)                                                                                             ccACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGt                                                    >  1:813824/1‑151 (MQ=255)                                                                                                      tgaCCAAAAAATTTACCCCCCATCCGCCCCCTCCCAGTAGCGCCACCACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGcc                                            <  2:421653/150‑1 (MQ=255)                                                                                                              aaaTTTAGCCCCCATACGCCCACTCCCAGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTacgac                                   <  1:668163/151‑1 (MQ=255)                                                                                                                       ccccATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAAt                          >  2:119/1‑151 (MQ=255)                                                                                                                       ccccATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAAt                          >  1:77629/1‑151 (MQ=255)                                                                                                                         caaTACCACCACTACCAGTAGCCCAAACCCCCCATTTTTTCGCAACATTTTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATgc                        <  2:649348/149‑1 (MQ=255)                                                                                                                            tccGACCACTACCAGTGGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATgcg                       <  2:168668/147‑1 (MQ=255)                                                                                                                                 ccACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATa                 >  1:1032020/1‑150 (MQ=255)                                                                                                                                  cACTACCAGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAg               <  2:747954/151‑1 (MQ=255)                                                                                                                                       ccAGTAGCGCCACCCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGc           <  1:397287/150‑1 (MQ=255)                                                                                                                                          gTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCtat        >  2:94919/1‑150 (MQ=255)                                                                                                                                            aGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACt     >  2:7001/1‑151 (MQ=255)                                                                                                                                              cgcCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTc   <  1:583153/151‑1 (MQ=255)                                                                                                                                               gcCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCg  >  2:800299/1‑151 (MQ=255)                                                                                                                                                     |                                                                                                                                                 CTTTCGGTCGTGCGACAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCGG‑CCAGCATCAGCGGTGGCATG‑TTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACCAGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCG  >  NC_000913/1620972‑1621262

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑