Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,825,061	0	G	A	43.8%	55.0 / 28.1	48	intergenic (‑124/+79)	ves/spy	cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced
Reads supporting (aligned to +/- strand):  ref base G (21/6);  new base A (0/21);  total (21/27)
Fisher's exact test for biased strand distribution p-value = 1.66e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACGCTTCTCAAAATTAG  >  NC_000913/1824914‑1825207                                                                                                                                                     |                                                                                                                                                   tttACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGagaaaagaa                                                                                                                                                  <  2:190044/150‑1 (MQ=255)  ttACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGagaaaagaaa                                                                                                                                                 <  1:961315/150‑1 (MQ=255)   tACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCGTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAgaaaagaaaa                                                                                                                                                <  2:584852/150‑1 (MQ=255)    aCGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAAcc                                                                                                                                              <  1:918615/151‑1 (MQ=255)     cGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAAccg                                                                                                                                             <  1:1109047/151‑1 (MQ=255)      gCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAAccgc                                                                                                                                            >  1:1225771/1‑151 (MQ=255)       cATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAAccgcc                                                                                                                                           >  2:495241/1‑151 (MQ=255)        atatCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAAccgcc                                                                                                                                           <  1:194925/150‑1 (MQ=255)                 tATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTTTcc                                                                                                                                 >  2:309689/1‑151 (MQ=255)                     ccATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCg                                                                                                                             >  2:844603/1‑151 (MQ=255)                       aTACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGc                                                                                                                            >  2:1088872/1‑150 (MQ=255)                              cccccGGCCCTTTTTTTTCTTTTTTATCGTTCAGGTAACCGGGGATGTTTATCGGCAACTCGGGTTATTTACGTAGGTGGTGACCGGGTTTTTTTTACAACTGTTT‑GAAAAAAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTAc                                                                                                                       <  2:366130/146‑1 (MQ=255)                               tCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTg                                                                                                                     >  1:912491/1‑149 (MQ=255)                                    gCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGt                                                                                                               >  1:194474/1‑150 (MQ=255)                                     cccGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGt                                                                                                               >  2:762410/1‑149 (MQ=255)                                       cGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTg                                                                                                           >  2:619387/1‑151 (MQ=255)                                             tttCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACa                                                                                                       >  1:1052839/1‑149 (MQ=255)                                              ttCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACa                                                                                                       >  2:552939/1‑148 (MQ=255)                                                  tttttATCTTTCAGTAACCCGGGGAGGTTTATCGGAACCTGGGGTGTTTTCCTTTGGTGGTAACCGGTTTTTTTTTAAAACTGTTG‑AAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGa                                                                                                    <  1:1163060/144‑1 (MQ=255)                                                     ttATCTTTCAGGTACCCGTGGATGGTTATCGGCACCTGGGGTGATTTACGTTAGTGGTGATCAGGTTTTTTTTACACCTTTTT‑GAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACcggc                                                                                               <  1:554976/149‑1 (MQ=255)                                                       aTCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACcggcgg                                                                                             >  1:452677/1‑149 (MQ=255)                                                           ttCAGGTAACCGTGGATGGTTATCGGCAACTGGGGTGATTTACGTTAGTGGTGATCAGTTTTTTTTTACAACTGTTT‑GAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCt                                                                                          <  1:274884/148‑1 (MQ=255)                                                           tgagggaaccgggggATGTTTTCCGGCAACTGGGGTATTTTCCTTTAGGGTTGACCGGGTTTTTTTTACATCTGTTT‑GAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCt                                                                                          <  2:990187/135‑1 (MQ=255)                                                               ggTACCCGTGGATGGTTAGCGGCAACTGGGGTGATTTACTTAAGGGGTTCTCAGGTTTTTTTTAAAACTTTTT‑GAGAAAAGAAAAAAAATCCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGtt                                                                                    <  1:1157426/150‑1 (MQ=255)                                                                  accggTGGTTGTTTATCGACACCTGGGGTGATTTAGGTTAGTGGTGATCAGGTTTTTTTTACAACTGTTT‑GAGAAAAAAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGttttt                                                                                 <  2:513308/146‑1 (MQ=255)                                                                  accggTGGATGGTTAGCGGCAACTCGGGTGATTTACGTTAGTGGTGATCGGGTTTTTTTTACAACTTTTT‑GAGAAGAGAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGtttttt                                                                                <  1:1003101/147‑1 (MQ=255)                                                                    cggTGGTTGGTTATCGGCAACTGGGGTGATTTACGTTAGTGGTGATCAGGTTTTTTTTACAACTGTTT‑GAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTgg                                                                              <  1:276486/149‑1 (MQ=255)                                                                      ggggttgtttacgggCAACTGGGGTAATTTAGGTTGGTGGTGATC‑GGCTTTTTTTTAAATCGTTTAGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTggtt                                                                            <  2:673128/138‑3 (MQ=255)                                                                      gTGGATGGTTATCGGCAACTGGGGTGTTTTACGTTAGTGGTGATCAGGTTTTTTTTACAACTGTTT‑GAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGc                                                                             <  1:28383/150‑1 (MQ=255)                                                                       tGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGtttttt                                                                                >  2:392016/1‑146 (MQ=255)                                                                       tGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTg                                                                           >  2:345375/1‑151 (MQ=255)                                                                            gtttATCGGCAACTGGGGTGATTTACGTTAGTGGTGATCAGGTTTTTTTAACAACTTTTT‑GAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAg                                                                       <  1:289161/148‑1 (MQ=255)                                                                            ggTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGaa                                                                         >  1:508339/1‑148 (MQ=255)                                                                                aTCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGGCTTAAGTTTTTTGGCTGAAAGattat                                                                  >  1:123459/1‑151 (MQ=255)                                                                                      aaCTCGGGTGATTTAGTTTAGGGGTGACCGGTCTTTTTTAACAATTGTGT‑GAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTcagc                                                             <  1:777056/150‑1 (MQ=255)                                                                                        cggggttaaTTTAAGTTAGTGGTAACCAGGTTTTTTTTTCACGTTTTT‑GAGAAGAGAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGt                                                          <  2:676701/143‑1 (MQ=255)                                                                                          ggggTAATTTACTTTAGTGGTGATCGGTTTTTTTTTACAACTGTTG‑GAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTg                                                        <  2:1154214/150‑1 (MQ=255)                                                                                           gggttttttCCGTTGGTGGTGATCAGGTTTTTTTAACAATTGTTT‑GAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGt                                                          <  2:438138/142‑1 (MQ=255)                                                                                           gggtattttACTTAAGTGTTAATCGGGTTTTTTTTACAACTGTTT‑AAGAAGAAAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGc                                                       <  2:1141662/145‑1 (MQ=255)                                                                                           gggTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAATTTTTT‑GAAAAGAAAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGt                                                          <  2:1218349/148‑1 (MQ=255)                                                                                                 tttACGTTAGTGGTGATCAGGTTTTTTTTACAACTTTTT‑GAAAAAAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAg                                                     <  2:41364/147‑1 (MQ=255)                                                                                                    aCGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCAtttt                                              >  2:614022/1‑151 (MQ=255)                                                                                                       ttAGGGGTGATCGGGTTTTTTTTACACTTGTTT‑GAAAAGAGAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCAtttt                                              <  1:747949/148‑1 (MQ=255)                                                                                                          gtggtgACCAGGTTTTTTTTACATTTTTTT‑GAAAAAAAAAAAAAAAACCGCCGATCCTGTCCACCGTATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCttt                                        <  2:306216/151‑1 (MQ=255)                                                                                                             gtgATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTTTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGGTGCAGGCATTTTACCTTTTGc                                     >  1:177277/1‑151 (MQ=255)                                                                                                                       tttttttACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGt                           >  1:69542/1‑151 (MQ=255)                                                                                                                              aCAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTTAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCCTTTTCCGCCGGACGTTCt                        >  2:1184372/1‑147 (MQ=255)                                                                                                                                  cTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACg                >  2:756786/1‑151 (MQ=255)                                                                                                                                      ttgaaaaaaaaaaaaaaaacCCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACGc               <  2:630659/138‑1 (MQ=255)                                                                                                                                       tagaaaagaaaaAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGAc                 <  2:901930/141‑1 (MQ=255)                                                                                                                                       t‑GAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACGCTtc            <  1:671648/150‑1 (MQ=255)                                                                                                                                            aagaaaaAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACGCTTCTCa         <  2:351919/149‑1 (MQ=255)                                                                                                                                                gaaaagaaaaCCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACGCTTCTCAAAAtt    >  1:628194/1‑150 (MQ=255)                                                                                                                                                 aaaagaaaaCCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACGCTTCTCAAAATTAg  <  1:946608/151‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                   TTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTT‑GAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACGCTTCTCAAAATTAG  >  NC_000913/1824914‑1825207

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑