Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,104,251	T→G	T79P (ACC→CCC)	yghD ←	GspM family type II secretion system protein YghD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,104,251	0	T	G	100.0%	137.3 / NA	38	T79P (ACC→CCC)	yghD	GspM family type II secretion system protein YghD
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (16/22);  total (16/22)

CCACGATCGGCTATCCGCCTGATGACCACCGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGTGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGACGCTAAACAGGAACACCACCGCTGCCAGTAACATGCCCTTTTCACGCG  >  NZ_CP009273/3104115‑3104385                                                                                                                                         |                                                                                                                                       ccACGATCGGCTATCCGCCTGATGACCACCGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGgggt                                                                                                                                      >  1:716512/1‑139 (MQ=255)          gCTATCCGCCTGATGACCACCGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGcca                                                                                                                             >  2:608686/1‑139 (MQ=255)          gCTATCCGCCTGATGACCACCGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGcca                                                                                                                             >  1:634008/1‑139 (MQ=255)              tCCGCCTGATGACCACCGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAg                                                                                                                         >  1:655960/1‑139 (MQ=255)                cGCCTGATGACCACCGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAgc                                                                                                                        <  2:32965/138‑1 (MQ=255)                cGCCTGATGACCACCGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAgc                                                                                                                        <  1:689898/138‑1 (MQ=255)                 gCCTGATGACCACCGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAgctg                                                                                                                      <  2:350637/139‑1 (MQ=255)                     gatgaCCACCGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGctgctg                                                                                                                   >  1:424897/1‑138 (MQ=255)                             ccGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGt                                                                                                          <  2:716512/139‑1 (MQ=255)                              cGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGtc                                                                                                         <  1:159257/139‑1 (MQ=255)                                aGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGtctc                                                                                                       >  1:682308/1‑139 (MQ=255)                                aGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATAACCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGtctc                                                                                                       >  1:246646/1‑139 (MQ=255)                                    cgcgGAAGCACTGTCACTGATGACCCGCGATGCCTGCGCAGGCGTTGTTGTGGCATATTGTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTg                                                                                                    <  2:773496/138‑1 (MQ=255)                                    cgcgGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTg                                                                                                    <  2:299634/138‑1 (MQ=255)                                                 tCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGtt                                                                                      >  1:500638/1‑139 (MQ=255)                                                        tgaCCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCaa                                                                               <  2:83567/139‑1 (MQ=255)                                                           cccGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACgg                                                                            >  2:493209/1‑139 (MQ=255)                                                           cccGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACgg                                                                            >  2:403374/1‑139 (MQ=255)                                                            ccGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGc                                                                           <  1:493209/139‑1 (MQ=255)                                                            ccGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGc                                                                           <  2:424897/139‑1 (MQ=255)                                                               cgATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGc                                                                        <  1:454220/139‑1 (MQ=255)                                                                    ccTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGAt                                                                   <  2:369633/139‑1 (MQ=255)                                                                     cTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGAt                                                                   >  2:113950/1‑138 (MQ=255)                                                                        cgcAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAgg                                                               <  2:395056/139‑1 (MQ=255)                                                                        cgcAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAg                                                                >  2:73324/1‑138 (MQ=255)                                                                        cgcAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAg                                                                <  2:500638/138‑1 (MQ=255)                                                                         gcAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGa                                                              <  2:655960/139‑1 (MQ=255)                                                                                  gttgtGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATc                                                     >  1:757482/1‑139 (MQ=255)                                                                                  gttgtGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATc                                                     >  2:365948/1‑139 (MQ=255)                                                                                          aGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGACGCTa                                             <  1:365948/139‑1 (MQ=255)                                                                                             ttttCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGACGCTAAAc                                          <  2:682308/139‑1 (MQ=255)                                                                                                 cgcgcgGCAAGAATATCCGGCGCGGCGTTCTTCGGTCGGGGGTTCATCGCCCCCGGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTGCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGCCGCTAAACAgg                                       <  2:757482/138‑1 (MQ=255)                                                                                                          ataataTCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGACGCTAAACAGGAACACCACCg                             <  2:563019/139‑1 (MQ=255)                                                                                                          ataataTCCGGCGCGGCGTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGACGCTAAACAGGAACACCACCg                             <  1:73324/139‑1 (MQ=255)                                                                                                                  cggcgcggcgTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGACGCTAAACAGGAACACCACCGCTGCCAg                      >  2:150430/1‑138 (MQ=255)                                                                                                                     cgcggcgTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACg                                                                             <  1:15514/80‑1 (MQ=255)                                                                                                                     cgcggcgTTCTTCAGTCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACg                                                                             >  2:15514/1‑80 (MQ=255)                                                                                                                                    tCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGACGCTAAACAGGAACACCACCGCTGCCa                       >  2:422238/1‑119 (MQ=255)                                                                                                                                    tCGGGGGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGACGCTAAACAGGAACACCACCGCTGCCa                       <  1:422238/119‑1 (MQ=255)                                                                                                                                      ggggGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGACGCTAAACAGGAACACCACCGCTGCCAGTAACATGCCCTTTTCAcgcg  <  2:246646/138‑1 (MQ=255)                                                                                                                                         |                                                                                                                                       CCACGATCGGCTATCCGCCTGATGACCACCGAGTGCGCGGAAGCACTGTCACTGATGACCCGCGATACCTGCGCAGGCGTTGTTGTGGCAGATTTTCGCGCTGCAATAATATCCGGCGCGGCGTTCTTCAGTCGGGTGTTCATCGCCACCAGCTGCTGCAATATTGTCTCCTGTTGCTCAATCCGTTCGCTCAACGGCTGCCAGATGAGGACGTAATATCCGACGCTAAACAGGAACACCACCGCTGCCAGTAACATGCCCTTTTCACGCG  >  NZ_CP009273/3104115‑3104385

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑