Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,136,234	A→G	E249G (GAA→GGA)	flgL →	flagellar hook‑associated protein FlgL

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,136,234	0	A	G	100.0%	125.9 / NA	35	E249G (GAA→GGA)	flgL	flagellar hook‑associated protein FlgL
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (15/20);  total (15/20)

TGCCATCGCAGCCCTGAAAACGCCGGTCGCGGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGAATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTGGTTGATGTGGACTGGAATGCAACTATTTCATCTTACATCA  >  NZ_CP009273/1136106‑1136362                                                                                                                                 |                                                                                                                                 tGCCATCGCAGCCCTGAAAACGCCGGTCGCGGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACg                                                                                                                        >  1:203412/1‑139 (MQ=255) tGCCATCGCAGCCCTGAAAACGCCGGTCGCGGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACg                                                                                                                        >  2:431278/1‑139 (MQ=255)      tCGCAGCCCTGAAAACGCCGGTCGCGGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCt                                                                                                                   >  1:717769/1‑139 (MQ=255)         cAGCCCTGAAAACGCCGGTCGCGGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTgaa                                                                                                                <  1:249174/139‑1 (MQ=255)           gCCCTGAAAACGCCGGTCGCGGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTgaac                                                                                                               >  2:240790/1‑138 (MQ=255)           gCCCTGAAAACGCCGGTCGCGGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTgaac                                                                                                               >  1:589004/1‑138 (MQ=255)            cccTGAAAACGCCGGTCGCGGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTgaacg                                                                                                              >  1:239486/1‑138 (MQ=255)                           tCGCGGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGa                                                                                              <  2:197629/139‑1 (MQ=255)                             gcgGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGAt                                                                                             <  1:731355/138‑1 (MQ=255)                             gcgGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGAt                                                                                             <  1:431278/138‑1 (MQ=255)                                gATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCAt                                                                                         <  1:607017/139‑1 (MQ=255)                                gATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCCGGATTCAt                                                                                         <  2:811141/139‑1 (MQ=255)                                       aaGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTga                                                                                                                 >  2:421332/1‑108 (MQ=255)                                       aaGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTga                                                                                                                 <  1:421332/108‑1 (MQ=255)                                            gATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATc                                                                             >  2:395684/1‑139 (MQ=255)                                                       cgccgcTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAggg                                                                  >  2:403278/1‑139 (MQ=255)                                                         ccgcTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGc                                                                 >  2:602922/1‑138 (MQ=255)                                                           gcTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCaaa                                                              <  1:790559/139‑1 (MQ=255)                                                                        aTAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAg                                                 <  2:239486/139‑1 (MQ=255)                                                                            aaccaaccGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGAt                                             >  1:755209/1‑139 (MQ=255)                                                                            aaccaaccGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGAt                                             <  1:808895/139‑1 (MQ=255)                                                                                aaccGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTgg                                         <  2:210997/139‑1 (MQ=255)                                                                                aaccGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTgg                                         <  1:317172/139‑1 (MQ=255)                                                                                aaccGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTgg                                         <  1:585876/139‑1 (MQ=255)                                                                                aaccGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTgg                                         <  1:592747/139‑1 (MQ=255)                                                                                                aCTCGCTGAACAATGTGCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTGGTTGATGTGGACTGGaa                         <  1:240790/139‑1 (MQ=255)                                                                                                               tgCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTGGTTGATGTGGACTGGAATGCAACTATTTCATc          <  2:782258/139‑1 (MQ=255)                                                                                                               tgCTGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTGGTTGATGTGGACTGGAATGCAACTATTTCATc          <  1:403278/139‑1 (MQ=255)                                                                                                                  tGACTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTGGTTGATGTGGACTGGAATGCAACTATTTCATCTTa       >  2:66307/1‑139 (MQ=255)                                                                                                                    aCTGTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTGGTTGATGTGGACTGGAATGCAACTATTTCATCTTAca     <  2:727092/139‑1 (MQ=255)                                                                                                                       gTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTgg                                         <  1:60206/100‑1 (MQ=255)                                                                                                                       gTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTgg                                         >  2:60206/1‑100 (MQ=255)                                                                                                                       gTTCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTGGTTGATGTGGACTGGAATGCAACTATTTCATCTTAcatca  >  1:375049/1‑139 (MQ=255)                                                                                                                         tCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGAt                                                                                             <  2:443081/46‑1 (MQ=255)                                                                                                                         tCGCGCGGGATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGAt                                                                                             >  1:443081/1‑46 (MQ=255)                                                                                                                                 |                                                                                                                                 TGCCATCGCAGCCCTGAAAACGCCGGTCGCGGATAGCGAAGCGGATAAAGAAACCGCCGCTGCGGCGTTAGATAAAACCAACCGCGGACTGAAAAACTCGCTGAACAATGTGCTGACTGTTCGCGCGGAATTAGGCACGCAGCTGAACGAACTGGAGTCGCTGGATTCATTAGGTAGCGATCGCGCTTTAGGGCAAACGCAGCAGATGAGCGATCTGGTTGATGTGGACTGGAATGCAACTATTTCATCTTACATCA  >  NZ_CP009273/1136106‑1136362

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑