Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,398,741	T→C	intergenic (‑119/+33)	uspE ← / ← fnr	universal stress protein with a role cellular motility/DNA‑binding transcriptional dual regulator FNR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,398,741	0	T	C	100.0%	176.9 / NA	49	intergenic (‑119/+33)	uspE/fnr	universal stress protein with a role cellular motility/DNA‑binding transcriptional dual regulator FNR
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (26/23);  total (26/23)

TTCTGATACATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGATATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCTTTGACTGCCAGCATGCCGCTTTTCTGGAAG  >  NC_000913/1398606‑1398876                                                                                                                                        |                                                                                                                                        ttCTGATACATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGa                                                                                                                                     <  2:560813/140‑1 (MQ=255) ttCTGATACATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGa                                                                                                                                     >  1:962753/1‑140 (MQ=255)   cTGATACATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAAtgacatgaca                                                                                                                                   <  2:294256/140‑1 (MQ=255)     gATACATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGa                                                                                                                                 <  2:285154/140‑1 (MQ=255)     gATACATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGa                                                                                                                                 <  1:652752/140‑1 (MQ=255)      aTACATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGacat                                                                                                                                       >  1:722379/1‑133 (MQ=255)      aTACATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGaa                                                                                                                                <  1:1014636/140‑1 (MQ=255)      aTACATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGaa                                                                                                                                >  1:985284/1‑140 (MQ=255)        aCATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAgg                                                                                                                              <  1:935785/140‑1 (MQ=255)            aGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGaa                                                                                                                                <  2:599075/134‑1 (MQ=255)            aGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGaa                                                                                                                                >  1:599075/1‑134 (MQ=255)            aGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAg                                                                                                                          >  1:343320/1‑140 (MQ=255)            aGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAg                                                                                                                          >  2:770291/1‑140 (MQ=255)                      ggTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGc                                                                                                                >  1:54524/1‑140 (MQ=255)                           ccTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGaaa                                                                                                           >  1:628014/1‑140 (MQ=255)                            cTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGaaaa                                                                                                          >  1:721352/1‑140 (MQ=255)                                caacaaCTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCa                                                                                                      >  1:10189/1‑140 (MQ=255)                                  acaacTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAgg                                                                                                    <  2:940261/140‑1 (MQ=255)                                     acTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCaa                                                                                                 <  1:1092524/140‑1 (MQ=255)                                      cTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAAc                                                                                                >  1:1046926/1‑140 (MQ=255)                                        gTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGt                                                                                              <  2:628014/140‑1 (MQ=255)                                              gCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTAcgcg                                                                                        <  1:905446/140‑1 (MQ=255)                                                       aaTTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAg                                                                               <  2:10189/140‑1 (MQ=255)                                                            aaaGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGc                                                                          <  2:212791/140‑1 (MQ=255)                                                                 ttAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGc                                                                     <  2:1046926/140‑1 (MQ=255)                                                                          atCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATc                                                            >  2:460160/1‑140 (MQ=255)                                                                              ggTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTa                                                        >  1:489617/1‑140 (MQ=255)                                                                                tgaatgaaACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTAtt                                                      >  2:86274/1‑140 (MQ=255)                                                                                     gaaACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGa                                                 <  1:460160/140‑1 (MQ=255)                                                                                     gaaACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGa                                                 <  2:962753/140‑1 (MQ=255)                                                                                          aGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTg                                            <  2:985284/140‑1 (MQ=255)                                                                                          aGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTg                                            <  2:721352/140‑1 (MQ=255)                                                                                            tgatgaACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGtt                                                         >  1:239494/1‑125 (MQ=255)                                                                                            tgatgaACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGtt                                                         <  2:239494/125‑1 (MQ=255)                                                                                            tgatgaACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGAt                                          >  1:661599/1‑140 (MQ=255)                                                                                            tgatgaACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGAt                                          <  2:191129/140‑1 (MQ=255)                                                                                                gaACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTAt                                      <  2:661599/140‑1 (MQ=255)                                                                                                      tCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTg                                            >  1:806770/1‑128 (MQ=255)                                                                                                      tCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTg                                            <  2:806770/128‑1 (MQ=255)                                                                                                      tCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCt                                >  2:121237/1‑140 (MQ=255)                                                                                                      tCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCt                                >  1:713208/1‑140 (MQ=255)                                                                                                      tCTGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCt                                >  2:35527/1‑140 (MQ=255)                                                                                                        tGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCttt                              <  2:489617/140‑1 (MQ=255)                                                                                                        tGCCAGATCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCttt                              >  2:80604/1‑140 (MQ=255)                                                                                                              aTCAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCTTTGACTGc                        >  2:188635/1‑140 (MQ=255)                                                                                                                cAATAAATCAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCTTTGACTGCCa                      >  2:744228/1‑140 (MQ=255)                                                                                                                        cAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCttt                              <  2:529614/124‑1 (MQ=255)                                                                                                                        cAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCttt                              >  1:529614/1‑124 (MQ=255)                                                                                                                        cAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCTTTGACTGCCAGCATGCCg              >  1:443219/1‑140 (MQ=255)                                                                                                                        cAGAAAAATTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCTTTGACTACCAGCATGCCg              >  2:503979/1‑140 (MQ=255)                                                                                                                           aaaaaTTTAATGACATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCTTTGACTGCCAGCATGCCGCtt           >  2:449071/1‑140 (MQ=255)                                                                                                                                    atgacatgacAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCTTTGACTGCCAGCATGCCGCTTTTCTGGAAg  <  1:744228/140‑1 (MQ=255)                                                                                                                                    atgacatgacAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCTTTGACTGCCAGCATGCCGCTTTTCTGGAAg  <  2:343320/140‑1 (MQ=255)                                                                                                                                        |                                                                                                                                        TTCTGATACATAGCCATACAGGGTCTCCTTACAACAACTGTCAACGCAGTTTGTAATTAAAAGATTAACCCATATCTGGTGAATGAAACAGTGATGAACCTTCTGCCAGATCAATAAATCAGAAAAATTTAATGATATGACAGAAGGATAGTGAGTTATGCGGAAAAATCAGGCAACGTTACGCGTATGACCAGCAAGCTGGGCCAGCGCATCGTTATTTTCGATGGTGATGTATTTACCTTTGACTGCCAGCATGCCGCTTTTCTGGAAG  >  NC_000913/1398606‑1398876

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑