Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,255,020	G→A	*234* (TAG→TAA)	yhaK →	redox‑sensitive bicupin

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,255,020	0	G	A	100.0%	177.4 / NA	55	*234* (TAG→TAA)	yhaK	redox‑sensitive bicupin
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (27/28);  total (27/28)

ATTTCATGCGCTTACGCATCATGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAGATGTTGAGCGAGCTGGAAGC  >  NC_000913/3254885‑3255155                                                                                                                                        |                                                                                                                                        aTTTCATGCGCTTACGCATCATGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAattg                                                                                                                                      >  1:199242/1‑139 (MQ=255)       tGCGCTTACGCATCATGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTa                                                                                                                                <  1:1341021/139‑1 (MQ=255)       tGCGCTTACGCATCATGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTa                                                                                                                                <  1:175175/139‑1 (MQ=255)         cgcTTACGCATCATGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACa                                                                                                                              <  1:79336/139‑1 (MQ=255)            ttACGCATCATGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAggg                                                                                                                           <  2:199242/139‑1 (MQ=255)               cGCATCATGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGgaga                                                                                                                        <  1:666184/139‑1 (MQ=255)                      tGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTa                                                                                                                                >  2:1369239/1‑124 (MQ=255)                      tGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTa                                                                                                                                <  1:1369239/124‑1 (MQ=255)                      tGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAg                                                                                                                             >  1:413601/1‑127 (MQ=255)                      tGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAg                                                                                                                             <  2:413601/127‑1 (MQ=255)                      tGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAgatgatgat                                                                                                                 <  1:441649/139‑1 (MQ=255)                      tGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAgatgatgat                                                                                                                 <  1:573202/139‑1 (MQ=255)                                         aCCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAggg                                                                                                                           <  2:256075/110‑1 (MQ=255)                                         aCCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAggg                                                                                                                           >  1:256075/1‑110 (MQ=255)                                                                        aGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGa                                                               >  2:564076/1‑139 (MQ=255)                                                                                    cGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTAc                                                                                                                               >  1:505606/1‑63 (MQ=255)                                                                                    cGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTAc                                                                                                                               <  2:505606/63‑1 (MQ=255)                                                                                    cGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTc                                                   >  2:1065035/1‑139 (MQ=255)                                                                                        ggTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTaaaaa                                                                                                        <  1:1393446/82‑1 (MQ=255)                                                                                        ggTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTaaaaa                                                                                                        >  2:1393446/1‑82 (MQ=255)                                                                                         gTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTa                                                                                                                                >  2:41613/1‑57 (MQ=255)                                                                                         gTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTa                                                                                                                                <  1:41613/57‑1 (MQ=255)                                                                                         gTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCa                                                >  2:15215/1‑137 (MQ=255)                                                                                         gTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCa                                                <  1:15215/137‑1 (MQ=255)                                                                                         gTTGCCGATTCCCCACTGCGCGCTTTGCTGATAAATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCAcc                                              >  1:100765/1‑139 (MQ=255)                                                                                          ttGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGt                                                                                >  2:1441620/1‑104 (MQ=255)                                                                                          ttGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGt                                                                                <  1:1441620/104‑1 (MQ=255)                                                                                               gATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCaaa                                        >  1:1172052/1‑139 (MQ=255)                                                                                                          gcgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAgcg                                                                                         >  1:114629/1‑79 (MQ=255)                                                                                                          gcgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAgcg                                                                                         <  2:114629/79‑1 (MQ=255)                                                                                                          gcgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTa                             <  1:564076/139‑1 (MQ=255)                                                                                                          gcgcgcTTTGCTGATAAATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTa                             <  2:100765/139‑1 (MQ=255)                                                                                                           cgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTAc                                                                                                                               <  2:61605/40‑1 (MQ=255)                                                                                                           cgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTAc                                                                                                                               >  1:61605/1‑40 (MQ=255)                                                                                                           cgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACa                                                                                                                              >  2:1030927/1‑41 (MQ=255)                                                                                                           cgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGt                                                                                >  2:715473/1‑87 (MQ=255)                                                                                                           cgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGt                                                                                <  1:715473/87‑1 (MQ=255)                                                                                                           cgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTAt                            >  1:828965/1‑139 (MQ=255)                                                                                                           cgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTAt                            >  1:1220421/1‑139 (MQ=255)                                                                                                           cgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTAt                            >  2:1443634/1‑139 (MQ=255)                                                                                                           cgcgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTCACAGGGAGAGGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGGGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTAt                            >  2:1049834/1‑139 (MQ=255)                                                                                                           cgcgcTTTGCTGATAGATTTGCCTGTCTAATGGTTTTTACa                                                                                                                              <  1:1030927/41‑1 (MQ=255)                                                                                                             cgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAgatgat                                                                                                                    >  2:1196457/1‑49 (MQ=255)                                                                                                             cgcTTTGCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAgatgat                                                                                                                    <  1:1196457/49‑1 (MQ=255)                                                                                                                   gCTGATAGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAGAt                    >  2:292512/1‑139 (MQ=255)                                                                                                                         aGATTTGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAGATGTTgag              <  2:828965/139‑1 (MQ=255)                                                                                                                             ttGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAGATGTTgagcgag          <  1:1065035/139‑1 (MQ=255)                                                                                                                              tGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAGATGTTgag              <  2:1461278/134‑1 (MQ=255)                                                                                                                              tGCCTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAGATGTTgag              >  1:1461278/1‑134 (MQ=255)                                                                                                                                ccTGTCTAATTGTTTTTACAGGGAGATGAAGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAGATGTTGAGCGAGCTg       >  2:751445/1‑139 (MQ=255)                                                                                                                                 cTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGaa                                                          >  2:1405466/1‑87 (MQ=255)                                                                                                                                 cTGTCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGaa                                                          <  1:1405466/87‑1 (MQ=255)                                                                                                                                    tCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAg                                                                                     >  2:1515904/1‑57 (MQ=255)                                                                                                                                    tCTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAg                                                                                     <  1:1515904/57‑1 (MQ=255)                                                                                                                                     cTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCa                                          <  2:519145/99‑1 (MQ=255)                                                                                                                                     cTAATTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAGATGTTGAGCGAGCTGGAAGc  >  1:1161121/1‑139 (MQ=255)                                                                                                                                        |                                                                                                                                        ATTTCATGCGCTTACGCATCATGAAGAGAAAGCGGCGCTGACCTGCGGTGATGGGGCGTTTATTCGTGACGAGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAGATGTTGAGCGAGCTGGAAGC  >  NC_000913/3254885‑3255155

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑