Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,598,557	A→G	*368Q (TAA→CAA)	livJ ←	branched‑chain amino acid ABC transporter periplasmic binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,598,557	0	A	G	100.0%	184.1 / NA	50	*368Q (TAA→CAA)	livJ	branched‑chain amino acid ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (27/23);  total (27/23)

CAATGTGTGTTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTACTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGAT  >  NC_000913/3598425‑3598692                                                                                                                                     |                                                                                                                                        cAATGTGTGTTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGc                                                                                                                                   >  2:729211/1‑139 (MQ=255)      tgtgtTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCgg                                                                                                                              >  1:678100/1‑139 (MQ=255)      tgtgtTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCgg                                                                                                                              >  1:1188226/1‑139 (MQ=255)       gtgtTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGt                                                                                                                             >  1:805400/1‑139 (MQ=255)           tGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCgcc                                                                                                                         >  1:1173814/1‑139 (MQ=255)                tttACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCgccgtgcc                                                                                                                    >  1:467439/1‑139 (MQ=255)                          tCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGc                                                                                                          <  1:608032/139‑1 (MQ=255)                                   cTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAAt                                                                                                 >  1:301208/1‑139 (MQ=255)                                     tGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATAc                                                                                               >  2:793052/1‑139 (MQ=255)                                         ggCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCg                                                                                           <  2:58680/139‑1 (MQ=255)                                              gATGAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCa                                                                                                        <  1:773865/121‑1 (MQ=255)                                              gATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCt                                                                                                                                       <  1:831295/90‑1 (MQ=255)                                              gATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTg                                                                                                           <  2:686869/118‑1 (MQ=255)                                              gATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTg                                                                                                           >  1:686869/1‑118 (MQ=255)                                              gATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCa                                                                                                        >  2:773865/1‑121 (MQ=255)                                              gATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTc                                                                                      >  2:849388/1‑139 (MQ=255)                                              gATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTc                                                                                      >  1:1037595/1‑139 (MQ=255)                                              gATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCCATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTc                                                                                      >  2:939695/1‑139 (MQ=255)                                               aTAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCa                                                                                     >  1:1138203/1‑139 (MQ=255)                                                         tACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGcc                                                                                            >  2:862431/1‑122 (MQ=255)                                                         tACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGcc                                                                                            <  1:862431/122‑1 (MQ=255)                                                         tACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTCGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCa                                                                           >  2:817656/1‑139 (MQ=255)                                                            gccgcATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGAt                                                                        <  1:525690/139‑1 (MQ=255)                                                              cgcATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGc                                                                                                          <  1:1096452/103‑1 (MQ=255)                                                              cgcATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGc                                                                                                          >  2:1096452/1‑103 (MQ=255)                                                              cgcATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCa                                                                                     <  1:780563/124‑1 (MQ=255)                                                              cgcATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCa                                                                                     >  2:780563/1‑124 (MQ=255)                                                              cgcATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCg                                                                      >  2:364718/1‑139 (MQ=255)                                                              cgcATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCg                                                                      >  1:283557/1‑139 (MQ=255)                                                                     ggCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTtct                                                               <  2:1037595/139‑1 (MQ=255)                                                                     ggCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTtct                                                               <  2:1138203/139‑1 (MQ=255)                                                                     ggCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTtct                                                               <  2:301208/139‑1 (MQ=255)                                                                      gCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGa                                                                         >  1:664919/1‑128 (MQ=255)                                                                      gCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGa                                                                         <  2:664919/128‑1 (MQ=255)                                                                                  gTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAg                                                  <  2:678100/139‑1 (MQ=255)                                                                                     cTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCgg                                               <  2:1173814/139‑1 (MQ=255)                                                                                      tCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGt                                              <  1:817656/139‑1 (MQ=255)                                                                                                  aTTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGAt                                                                        <  1:427316/101‑1 (MQ=255)                                                                                                  aTTTGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGAt                                                                        >  2:427316/1‑101 (MQ=255)                                                                                                   tttGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTAt                                 <  1:364718/139‑1 (MQ=255)                                                                                                    ttGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGt                                                                                                                             <  2:1065562/46‑1 (MQ=255)                                                                                                    ttGGCGGCAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGt                                                                                                                             >  1:1065562/1‑46 (MQ=255)                                                                                                      ggcggcAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCgg                                               >  2:1245397/1‑122 (MQ=255)                                                                                                      ggcggcAACCCAAAGTTGCCGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCgg                                               <  1:1245397/122‑1 (MQ=255)                                                                                                                        ccGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGt            >  1:460940/1‑139 (MQ=255)                                                                                                                         cGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGcc                                                                    <  2:612752/82‑1 (MQ=255)                                                                                                                         cGATTAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGcc                                                                    >  1:612752/1‑82 (MQ=255)                                                                                                                             tAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCg                                                                                           <  2:15790/55‑1 (MQ=255)                                                                                                                             tAATGATTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCg                                                                                           >  1:15790/1‑55 (MQ=255)                                                                                                                                  aTTGCTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGAt  <  2:467439/139‑1 (MQ=255)                                                                                                                                     |                                                                                                                                        CAATGTGTGTTGCAATTTACTGATTTCTTTGGATCTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAAGCAACGTACTCGATATTAGCAATTTGGCGGCAACCCAAAGTTGCCGATTAATGATTACTTCGCATCGGTCGCCGTGCCGTTGGCGTGCCAGTCAAATACGCCGAACTCAAAGCCTTTCAGATCGCCTTTCTCATCCCAGGTCAGCGGTCCCATTACGGTATCCACGGAGTTCGCTTTCAGGTATTTGGCGAT  >  NC_000913/3598425‑3598692

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑