Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,979,639	T→C	intergenic (‑424/‑114)	insA ← / → uspC	IS1 repressor TnpA/universal stress protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,979,639	0	T	C	100.0%	230.8 / NA	56	intergenic (‑424/‑114)	insA/uspC	IS1 repressor TnpA/universal stress protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (36/20);  total (36/20)

AAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCTTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATGAGCTATAGCAATATTCTTGTCGCTGTTGCGG  >  NC_000913/1979492‑1979786                                                                                                                                                    |                                                                                                                                                    aaaTACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCctt                                                                                                                                                   <  1:655919/150‑1 (MQ=255)       aaagaaagGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACtaat                                                                                                                                             >  2:454858/1‑150 (MQ=255)        aagaaagGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACtaata                                                                                                                                            >  2:655934/1‑150 (MQ=255)         agaaagGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTaataat                                                                                                                                          <  2:65434/151‑1 (MQ=255)           aaagGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCa                                                                                                                                        <  1:534917/151‑1 (MQ=255)                caacaaTCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTa                                                                                                                                   <  1:235377/151‑1 (MQ=255)                   caaTCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAat                                                                                                                                 >  2:718582/1‑150 (MQ=255)                     aTCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATAtt                                                                                                                              >  1:533591/1‑151 (MQ=255)                     aTCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATAtt                                                                                                                              <  1:450825/151‑1 (MQ=255)                       cAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATAttt                                                                                                                             >  1:94391/1‑150 (MQ=255)                       cAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTa                                                                                                                            <  1:144733/151‑1 (MQ=255)                        aaCTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTAc                                                                                                                           <  2:85511/151‑1 (MQ=255)                         aCTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTAcc                                                                                                                          <  2:681971/151‑1 (MQ=255)                          cTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCt                                                                                                                         >  1:858079/1‑151 (MQ=255)                            taatgttaatgAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCt                                                                                                                         <  1:451062/149‑1 (MQ=255)                             aatgttaatgAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGt                                                                                                                       <  1:715163/150‑1 (MQ=255)                                gttaatgAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTg                                                                                                                    >  1:155821/1‑150 (MQ=255)                                  taatgAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGAcc                                                                                                                 >  2:429562/1‑151 (MQ=255)                                   catgAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCg                                                                                                                >  2:492408/2‑151 (MQ=255)                                      gAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGt                                                                                                             <  1:188896/151‑1 (MQ=255)                                       aaaTGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTGTAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGtt                                                                                                            >  1:122966/1‑151 (MQ=255)                                              ttACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGAtt                                                                                                      <  2:654746/150‑1 (MQ=255)                                              ttACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTg                                                                                                     >  2:213163/1‑151 (MQ=255)                                              ttACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATA‑TTACCTGTTTGACCGAGTTGGGATTGc                                                                                                    >  2:751766/1‑151 (MQ=255)                                                aCATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGcg                                                                                                   >  1:141/1‑151 (MQ=255)                                                aCATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGcg                                                                                                   >  2:101688/1‑151 (MQ=255)                                                     tatTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGtt                                                                                              >  1:643704/1‑151 (MQ=255)                                                        tAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTtct                                                                                           >  2:111380/1‑151 (MQ=255)                                                           ccACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTcc                                                                                         >  1:131612/1‑150 (MQ=255)                                                            cACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCAt                                                                                       >  2:220991/1‑151 (MQ=255)                                                                      aTGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTGATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTaa                                                                              >  1:292159/1‑150 (MQ=255)                                                                      aTGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTaaa                                                                             <  2:412157/151‑1 (MQ=255)                                                                      aTGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTaa                                                                              >  2:367365/1‑150 (MQ=255)                                                                         cGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCt                                                                          >  1:271890/1‑151 (MQ=255)                                                                            agaATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCttt                                                                        >  1:525424/1‑150 (MQ=255)                                                                                tCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGt                                                                   >  2:39319/1‑151 (MQ=255)                                                                                       acTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTg                                                             >  2:548153/1‑150 (MQ=255)                                                                                           ttttCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGtt                                                        >  2:797667/1‑151 (MQ=255)                                                                                             ttCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTc                                                       <  1:116568/150‑1 (MQ=255)                                                                                                    aaTTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAAt                                                >  2:726325/1‑150 (MQ=255)                                                                                                     aTTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATa                                               >  2:428898/1‑150 (MQ=255)                                                                                                      ttACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAAt                                                >  2:310567/1‑148 (MQ=255)                                                                                                             tGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAg                                       <  2:390495/150‑1 (MQ=255)                                                                                                             tGAAATTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAg                                       <  1:367400/150‑1 (MQ=255)                                                                                                               aaaTTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGtt                                    >  1:170188/1‑151 (MQ=255)                                                                                                                 aTTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTAt                                  >  1:721044/1‑151 (MQ=255)                                                                                                                 aTTATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTAt                                  >  1:257817/1‑151 (MQ=255)                                                                                                                  ttATATGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATg                                 >  1:540626/1‑151 (MQ=255)                                                                                                                    atatGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATg                                 >  1:550142/1‑149 (MQ=255)                                                                                                                       tGATCACCGGGAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATGAGCt                             >  2:402970/1‑150 (MQ=255)                                                                                                                                ggAGTGATTGATTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATGAGCTATAGCAatat                   <  2:720943/151‑1 (MQ=255)                                                                                                                                    tgattgatTAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATGAGCTATAGCAATATTCtt               >  1:149762/1‑151 (MQ=255)                                                                                                                                        tgattAATTATCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATGAGCTATAGCAATATTCTTGTCg           >  1:317482/1‑151 (MQ=255)                                                                                                                                          attaattaTCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATGAGCTATAGCAATATTCTTGTCGCt         <  1:718641/151‑1 (MQ=255)                                                                                                                                             aattaTCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATGAGCTATAGCAATATTCTTGTCGCTGtt      <  1:778701/151‑1 (MQ=255)                                                                                                                                              attaTCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATGAGCTATAGCAATATTCTTGTCGCTGTTg     <  2:785298/151‑1 (MQ=255)                                                                                                                                                 aTCCTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATGAGCTATAGCAATATTCTTGTCGCTGTTGCgg  <  1:873418/151‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                    AAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCACTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTGATTGATTAATTATCTTTACTAATAATCAGACTAATATTTACCTGTTTGACCGAGTTGGGATTGCGTCGTTTCTCCATTAGGAGTAAAGCTTTAATGTCACCTGAAGTTCACAGAATAAGGAACAGGTTATGAGCTATAGCAATATTCTTGTCGCTGTTGCGG  >  NC_000913/1979492‑1979786

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑