Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,601,769	G→A	E94K (GAA→AAA)	lsrA →	autoinducer 2 import ATP‑binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,601,769	0	G	A	100.0%	196.1 / NA	56	E94K (GAA→AAA)	lsrA	autoinducer 2 import ATP‑binding protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (27/29);  total (27/29)

CGACGTTAATGAAGATTATTGCCGGTATTACCCCTGCTGATAGCGGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGGAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTGCCAGTTTGATCTGCATAGTCTGGCAG  >  NC_000913/1601641‑1601904                                                                                                                                  |                                                                                                                                        cGACGTTAATGAAGATTATTGCCGGTATTACCCCTGCTGATAGCGGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCgctgct                                                                                                                               <  1:1077710/139‑1 (MQ=255) cGACGTTAATGAAGATTATTGCCGGTATTACCCCTGCTGATAGCGGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCgctgct                                                                                                                               <  1:556135/139‑1 (MQ=255)             aGATTATTGCCGGTATTACCCCTGCTGATAGCGGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCt                                                                                                                   <  2:947555/139‑1 (MQ=255)               attattGCCGGTATTACCCCTGCTGATAGCGGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGt                                                                                                                 <  2:985497/139‑1 (MQ=255)                 tattGCCGGTATTACCCCTGCTGATAGCGGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCg                                                                                                               >  2:80981/1‑139 (MQ=255)                    tGCCGGTATTACCCCTGCTGATAGCGGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATa                                                                                                            >  2:659997/1‑139 (MQ=255)                               ccccTGCTGATAGCCGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCCCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAACAAAACAt                                                                                                 <  1:757297/139‑1 (MQ=255)                                    gctgATAGCGGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGt                                                                                            >  1:599107/1‑139 (MQ=255)                                         tAGCGGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTggg                                                                                       <  1:765347/139‑1 (MQ=255)                                          aGCGTTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTGTTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGc                                                                                      >  2:719857/1‑139 (MQ=255)                                               tACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCTGGGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGaa                                                                                                      <  1:1175835/119‑1 (MQ=255)                                               tACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCTGGGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGaa                                                                                                      >  2:1175835/1‑119 (MQ=255)                                               tACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGa                                                                                                              <  1:845519/110‑1 (MQ=255)                                               tACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGa                                                                                                              >  2:845519/1‑110 (MQ=255)                                               tACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACa                                                                                                  >  2:594974/1‑122 (MQ=255)                                               tACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACa                                                                                                  <  1:594974/122‑1 (MQ=255)                                                    tGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGc                                                                                                                     >  1:490529/1‑98 (MQ=255)                                                    tGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGc                                                                                                                     <  2:490529/98‑1 (MQ=255)                                                      gagaTTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAAc                                                                          >  1:154482/1‑139 (MQ=255)                                                           tGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGctc                                                                     >  1:216599/1‑139 (MQ=255)                                                                 caacaaCTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATg                                                               <  1:719857/139‑1 (MQ=255)                                                                  aacaacTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCg                                                                                                                                    <  1:601659/69‑1 (MQ=255)                                                                  aacaacTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCg                                                                                                                                    <  1:639593/69‑1 (MQ=255)                                                                  aacaacTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCg                                                                                                                                    >  2:601659/1‑69 (MQ=255)                                                                  aacaacTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCg                                                                                                                                    >  2:639593/1‑69 (MQ=255)                                                                  aacaacTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATaa                                                                                                           >  2:147820/1‑94 (MQ=255)                                                                  aacaacTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATaa                                                                                                           <  1:147820/94‑1 (MQ=255)                                                                  aacaacTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGc                                                              <  2:599107/139‑1 (MQ=255)                                                                    caacTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCTAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAg                                                            >  1:1085759/1‑139 (MQ=255)                                                                         aCGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAATCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAAt                                                       >  1:700827/1‑139 (MQ=255)                                                                         aCGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAAt                                                       <  1:659997/139‑1 (MQ=255)                                                                          cGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGa                                                           <  1:152647/134‑1 (MQ=255)                                                                          cGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGa                                                           >  2:152647/1‑134 (MQ=255)                                                                                aTTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGa                                                                                                              >  1:266000/1‑77 (MQ=255)                                                                                aTTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGa                                                                                                              <  2:266000/77‑1 (MQ=255)                                                                                  tAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACtt                                              >  2:936855/1‑139 (MQ=255)                                                                                                gCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCgctgct                                                                                                                               <  2:126284/44‑1 (MQ=255)                                                                                                gCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGAAACCgctgct                                                                                                                               >  1:126284/1‑44 (MQ=255)                                                                                                    atcaGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTg                            >  1:1192974/1‑139 (MQ=255)                                                                                                     tcaGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATa                                                                                                            >  2:830774/1‑58 (MQ=255)                                                                                                     tcaGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATa                                                                                                            <  1:830774/58‑1 (MQ=255)                                                                                                      caGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATaaa                                                                                                          >  2:900772/1‑59 (MQ=255)                                                                                                      caGCT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATaaa                                                                                                          <  1:900772/59‑1 (MQ=255)                                                                                                         cT‑GGGTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTGCCAGt                       <  2:1192974/139‑1 (MQ=255)                                                                                                            gggTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTGCCAGttt                     <  2:1108315/139‑1 (MQ=255)                                                                                                             ggTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTg                            <  1:1185580/131‑1 (MQ=255)                                                                                                             ggTATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTg                            >  2:1185580/1‑131 (MQ=255)                                                                                                               tATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTGCCAGTTTGa                   <  1:896356/138‑1 (MQ=255)                                                                                                               tATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTGCCAGTTTGa                   >  2:896356/1‑138 (MQ=255)                                                                                                               tATTTATCTCGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTGCCAGTTTGAt                  >  1:1116125/1‑139 (MQ=255)                                                                                                                       tcGTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTGCCAGTTTGATCTGCATAg          <  2:216599/139‑1 (MQ=255)                                                                                                                         gTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATa                                                                                                            <  1:1104425/39‑1 (MQ=37)                                                                                                                         gTTCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGATa                                                                                                            >  2:1104425/1‑39 (MQ=255)                                                                                                                           tCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGa                                                                                                              >  1:1073282/1‑35 (MQ=255)                                                                                                                           tCCCCAGAAACCGCTGCTTTTCCCAAGCCTGTCGa                                                                                                              <  2:1073282/35‑1 (MQ=37)                                                                                                                               cAGAAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTGCCAGTTTGATCTGCATAGTCTGGCAg  <  1:936855/139‑1 (MQ=255)                                                                                                                                  |                                                                                                                                        CGACGTTAATGAAGATTATTGCCGGTATTACCCCTGCTGATAGCGGTACGCTGGAGATTGAGGGCAACAACTACGTCAGATTAACGCCAGTTCATGCTCATCAGCT‑GGGTATTTATCTCGTTCCCCAGGAACCGCTGCTTTTCCCAAGCCTGTCGATAAAAGAAAACATCCTGTTTGGGCTGGCAAAAAAACAGCTCTCCATGCAGAAAATGAAGAACTTGCTGGCGGCGCTGGGCTGCCAGTTTGATCTGCATAGTCTGGCAG  >  NC_000913/1601641‑1601904

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑