Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,616,013	T→C	intergenic (‑132/‑81)	yfgO ← / → bepA	putative UPF0118 family inner membrane permease/OM protein maintenance and assembly metalloprotease and chaperone, periplasmic

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,616,013	0	T	C	98.2%	199.3 / ‑4.0	54	intergenic (‑132/‑81)	yfgO/bepA	putative UPF0118 family inner membrane permease/OM protein maintenance and assembly metalloprotease and chaperone, periplasmic
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (27/26);  total (27/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.67e-01

CATTTCGAGCATAAAGACCTTCCCTGAACCTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTTACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTCATTGCTGCTATGACCATTGGTCAGGTA  >  NC_000913/2615870‑2616159                                                                                                                                                |                                                                                                                                                   cATTTCGAGCATAAAGACCTTCCCTGAACCTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTc                                                                                                                                              >  1:56139/1‑150 (MQ=255)    ttCGAGCATAAAGACCTTCCCTGAACCTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCaaa                                                                                                                                           <  2:110322/150‑1 (MQ=255)           aTAAAGACCTTCCCTGAACCTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGgcgc                                                                                                                                   >  1:487830/1‑151 (MQ=255)                gACCTTCCCTGAACCTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTgg                                                                                                                              <  1:340927/151‑1 (MQ=255)                 aCCTTCCCTGAACCTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTggg                                                                                                                             >  1:81401/1‑151 (MQ=255)                   cTTCCCTGAACCTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGa                                                                                                                            >  2:279774/1‑150 (MQ=255)                      cccTTAACCTCAAGCGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACg                                                                                                                         >  1:116752/1‑150 (MQ=255)                          gAACCTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATAtt                                                                                                                    <  1:461375/151‑1 (MQ=255)                          gAACCTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATAtt                                                                                                                    >  2:54653/1‑151 (MQ=255)                              cTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTcac                                                                                                                >  2:651783/1‑151 (MQ=255)                                 aaGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGt                                                                                                             >  2:17427/1‑151 (MQ=255)                                  agagCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTa                                                                                                            <  1:575350/151‑1 (MQ=255)                                   gagCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTAt                                                                                                           >  1:462327/1‑151 (MQ=255)                                    agCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATc                                                                                                          <  2:64441/151‑1 (MQ=255)                                        ggATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTc                                                                                                      <  1:278138/151‑1 (MQ=255)                                          aTTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCa                                                                                                     >  2:403377/1‑150 (MQ=255)                                             gCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATg                                                                                                 <  2:105908/151‑1 (MQ=255)                                              cGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGa                                                                                                <  1:419488/151‑1 (MQ=255)                                                aTCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACt                                                                                              <  2:113960/151‑1 (MQ=255)                                                 tCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACt                                                                                              >  2:550191/1‑150 (MQ=255)                                                       aTTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCa                                                                                       <  1:29832/151‑1 (MQ=255)                                                            aTCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAAt                                                                                  >  2:59782/1‑151 (MQ=255)                                                                       acaAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATag                                                                         >  1:177722/1‑149 (MQ=255)                                                                            aaaGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTAt                                                                  <  1:100857/151‑1 (MQ=255)                                                                            aaaGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTAt                                                                  <  1:26464/151‑1 (MQ=255)                                                                              aGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGt                                                                >  2:491278/1‑151 (MQ=255)                                                                                  ttCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTc                                                              >  2:14989/1‑149 (MQ=255)                                                                                   tCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCa                                                             <  2:214653/149‑1 (MQ=255)                                                                                           tATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGa                                                    >  2:519056/1‑150 (MQ=255)                                                                                           tATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGa                                                    >  2:358819/1‑150 (MQ=255)                                                                                            aTGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTTACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGaa                                                   <  2:626707/150‑1 (MQ=255)                                                                                            aTGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGaa                                                   <  2:368802/150‑1 (MQ=255)                                                                                             tGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGaaa                                                  >  2:629916/1‑150 (MQ=255)                                                                                              gACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGaaaaa                                                <  2:12128/151‑1 (MQ=255)                                                                                                cGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGaaaaaaa                                              <  2:511628/151‑1 (MQ=255)                                                                                                   aTTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAAcc                                           <  1:185542/151‑1 (MQ=255)                                                                                                        ggAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGtt                                      >  2:639501/1‑151 (MQ=255)                                                                                                          aaaCTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGc                                    >  1:528005/1‑151 (MQ=255)                                                                                                           aaCTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAATCCTGGTTGCa                                   <  2:655241/151‑1 (MQ=255)                                                                                                           aaCTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGc                                    >  1:154343/1‑150 (MQ=255)                                                                                                           aaCTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCa                                   <  2:656353/151‑1 (MQ=255)                                                                                                            aCTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCaa                                  <  1:375702/151‑1 (MQ=255)                                                                                                             cTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAAc                                 >  2:591243/1‑151 (MQ=255)                                                                                                               gAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCaaa                                 <  1:175883/149‑2 (MQ=255)                                                                                                               gAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAAcc                                <  1:488338/150‑1 (MQ=255)                                                                                                                 aaaGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTc                             >  2:499586/1‑151 (MQ=255)                                                                                                                  aaGTCATTTGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTc                             >  1:290490/1‑150 (MQ=255)                                                                                                                         ttGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTCATtgctgc                     >  2:136266/1‑151 (MQ=255)                                                                                                                         ttGAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTCATtgctg                      <  2:273730/150‑1 (MQ=255)                                                                                                                           gAGTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTCATTgctgct                    <  1:499940/150‑1 (MQ=255)                                                                                                                             gTGGGCTAATCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTCATTGCTGCTATg                 <  2:363106/151‑1 (MQ=255)                                                                                                                                      tCTTCGCCGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTCATTGCTGCTATGACCATTGGt        >  1:225840/1‑151 (MQ=255)                                                                                                                                            ccGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTCATTGCTGCTATGACCATTGGTCAGGTa  <  1:27326/151‑1 (MQ=255)                                                                                                                                             cGTCACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTCATTGCTGCTATGACCATTGGTCAGGt   >  2:310558/1‑149 (MQ=255)                                                                                                                                                |                                                                                                                                                   CATTTCGAGCATAAAGACCTTCCCTGAACCTCAAGAGCGGGATTGCGATCCGCAATTGTATCGAAATGTCACAAAAAAGACTTCGCTTTTTATGACGGATTCAGGAAACTGAAAAGTCATTTGAGTGGGCTAATCTTCGCCGTTACACTCAAAGGCGGCGCGGTGGGAACGATATTTCACAGTATCGGTCAAATGACTATCTCCAGAAATACAGGATAGAGGTTATGTTCAGGCAGTTGAAAAAAAACCTGGTTGCAACCCTCATTGCTGCTATGACCATTGGTCAGGTA  >  NC_000913/2615870‑2616159

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑