Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,597,630	G→A	V119I (GTT→ATT)	lsrC →	autoinducer 2 ABC transporter permease LsrC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,597,630	0	G	A	100.0%	192.0 / NA	50	V119I (GTT→ATT)	lsrC	autoinducer 2 ABC transporter permease LsrC
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (24/26);  total (24/26)

GCGCGGTGCTGTTGGGGATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTGTTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAATGGATTGAAGGGTTACCCGCCGAACTGAAACAGCTCTCCGCCCCGCTGCTGCTTGGCGTTTCAGCAATTGGT  >  NZ_CP009273/1597496‑1597764                                                                                                                                       |                                                                                                                                       gcgcGGTGCTGTTGGGGATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGc                                                                                                                                    >  1:1029140/1‑139 (MQ=255)         cTGTTGGGGATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTg                                                                                                                            <  2:1029140/139‑1 (MQ=255)          tGTTGGGGATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTgg                                                                                                                           >  1:322619/1‑139 (MQ=255)            ttGGGGATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTgg                                                                                                                           <  2:641539/137‑1 (MQ=255)               gggATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGt                                                                                                                      <  2:692387/139‑1 (MQ=255)               gggATGTTACTGAACGCAGGATATTCACTACCGGTTGCTGGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGt                                                                                                                      <  1:329518/139‑1 (MQ=255)                 gATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGt                                                                                                                      >  1:941760/1‑137 (MQ=255)                 gATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGt                                                                                                                      >  2:709732/1‑137 (MQ=255)                 gATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGt                                                                                                                      >  1:382558/1‑137 (MQ=255)                 gATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGGCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTa                                                                                                                    <  1:1080171/139‑1 (MQ=255)                    gTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAggg                                                                                                                 >  2:902973/1‑139 (MQ=255)                     ttACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCTTGCCATTATTGCCACCCTTGGCACGTTAGGGt                                                                                                                <  1:1124486/139‑1 (MQ=255)                     ttACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAggg                                                                                                                 <  1:8128/138‑1 (MQ=255)                     ttACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAggg                                                                                                                 <  1:463162/138‑1 (MQ=255)                      tACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGc                                                                                                                                    >  2:438177/1‑118 (MQ=255)                      tACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGc                                                                                                                                    <  1:438177/118‑1 (MQ=255)                      tACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGtt                                                                                                               >  1:704137/1‑139 (MQ=255)                               cAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAgg                                                                                                      >  2:1179843/1‑139 (MQ=255)                                aGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAgg                                                                                                      >  1:374767/1‑138 (MQ=255)                                 ggATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGca                                                                                                    <  2:382558/139‑1 (MQ=255)                                 ggATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGca                                                                                                    <  1:1105837/139‑1 (MQ=255)                                      ttCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATg                                                                                               <  1:709732/139‑1 (MQ=255)                                       tCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATg                                                                                               <  2:704137/138‑1 (MQ=255)                                       tCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATg                                                                                               <  2:1189918/138‑1 (MQ=255)                                         aCTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATg                                                                                               >  2:1081378/1‑136 (MQ=255)                                         aCTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATg                                                                                               <  1:1081378/136‑1 (MQ=255)                                              cTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGt                                                                                                                      >  1:778510/1‑108 (MQ=255)                                              cTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGt                                                                                                                      <  2:778510/108‑1 (MQ=255)                                                gTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGCTCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGa                                                                                     >  1:1068435/1‑139 (MQ=255)                                                gTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTgg                                                                                                                           <  1:841956/101‑1 (MQ=255)                                                gTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTgg                                                                                                                           >  2:841956/1‑101 (MQ=255)                                                 ttGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGAc                                                                                    >  1:1151467/1‑139 (MQ=255)                                                   gCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTg                                                                                  >  1:841687/1‑139 (MQ=255)                                                        tgtCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAggg                                                                                                                 <  2:800261/103‑1 (MQ=255)                                                        tgtCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAggg                                                                                                                 >  1:800261/1‑103 (MQ=255)                                                          tCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCa                                                                            <  2:755079/138‑1 (MQ=255)                                                                          tGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTTCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAATGGATTGGAGGGTTa                                                           >  2:726572/1‑139 (MQ=255)                                                                            gTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAATGGATTGAAGGGTTAc                                                          <  2:1151467/138‑1 (MQ=255)                                                                                                  cGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAATGGATTGAAGGGTTACCCGCCGAACTGAAACAGCTCTcc                                   >  2:1008405/1‑139 (MQ=255)                                                                                                       tCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTg                                                                                                                            <  2:1237162/45‑1 (MQ=255)                                                                                                       tCCTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTg                                                                                                                            >  1:1237162/1‑45 (MQ=255)                                                                                                         cTGGTCGCGTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAATGGATTGAAGGGTTACCCGCCGAACTGAAACAGCTCTCCGCCCCg                             <  1:314921/138‑1 (MQ=255)                                                                                                                 gTGGCTAAAGATCCCTGCCATTATTGCCACCCTTgg                                                                                                                           >  2:1161861/1‑36 (MQ=255)                                                                                                                 gTGGCTAAAGATCCCTGCCATTATTGCCACCCTTgg                                                                                                                           <  1:1161861/36‑1 (MQ=255)                                                                                                                 gTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAAt                                                                         >  2:58590/1‑86 (MQ=255)                                                                                                                 gTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAAt                                                                         <  1:58590/86‑1 (MQ=255)                                                                                                                 gTGGCTAAAGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAATGGATTGAAGGGTTACCCGCCGAACTGAAACAGCTCTCCGCCCCGCTGCTGCtt                    >  1:1151250/1‑139 (MQ=255)                                                                                                                        aaGATCCCTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAATGGTTTGAAGGGTTACCCGCCGAACTGAAACAGCTCTCCGCCCCGCTGCTGCTTGGCGttt             <  2:374767/139‑1 (MQ=255)                                                                                                                             cccTGCCATTATTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAATGGATTGAAGGGTTACCCGCCGAACTGAAACACCTCTCCGCCCCGCTGCTGCTTGGCGTTTCAGc         >  1:1219481/1‑138 (MQ=255)                                                                                                                                   cATTATTGCCCCCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAATGGATTGAAGGGTTACCCGCCGAACTGAAACAGCTCTCCGCCCCGCTGCTGCTTGGCGTTTCAGCAAttggt  <  2:322619/139‑1 (MQ=255)                                                                                                                                       |                                                                                                                                       GCGCGGTGCTGTTGGGGATGTTACTGAACGCAGGATATTCACTACCTGTTGCTTGTGTCGCGACTTTACTGCTTGGTTTGCTCGCGGGATTTTTCAACGGTGTCCTGGTCGCGTGGCTAAAGATCCCTGCCATTGTTGCCACCCTTGGCACGTTAGGGTTGTACAGAGGCATCATGTTGCTGTGGACTGGCGGCAAATGGATTGAAGGGTTACCCGCCGAACTGAAACAGCTCTCCGCCCCGCTGCTGCTTGGCGTTTCAGCAATTGGT  >  NZ_CP009273/1597496‑1597764

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑