Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,067,836	T→A	R939R (CGT→CGA)	agn43 →	autotransporter adhesin Ag43

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,067,836	0	T	A	100.0%	141.8 / NA	38	R939R (CGT→CGA)	agn43	autotransporter adhesin Ag43
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (17/21);  total (17/21)

TCGGGCATGGCAGTGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGTGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACTGGTGGGTACAGCCTTCTGTTATCCGCACCTTCAGC  >  NZ_CP009273/2067748‑2067923                                                                                         |                                                                                        tCGGGCATGGCAGTGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGc                                                                                       >  2:444931/1‑91 (MQ=255)  cGGGCATGGCAGTGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCTACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGcc                                                                                      >  2:853895/1‑91 (MQ=255)    ggCATGGCAGTGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGcccc                                                                                    <  1:206482/91‑1 (MQ=255)    ggCATGGCAGTGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGcccc                                                                                    >  1:530209/1‑91 (MQ=255)      cATGGCAGTGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGcccccc                                                                                  <  1:541527/91‑1 (MQ=255)         ggCAGTGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGc                                                                               >  1:477640/1‑91 (MQ=255)             gTGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGa                                                                           >  1:128991/1‑91 (MQ=255)              tGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGAc                                                                          <  1:4800/91‑1 (MQ=255)              tGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGAc                                                                          <  1:544651/91‑1 (MQ=255)                cacaACATGTGGGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAg                                                                        <  2:402119/91‑1 (MQ=255)                cacaACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAg                                                                        <  2:638123/91‑1 (MQ=255)                    acaTGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCa                                                                    <  2:786455/91‑1 (MQ=255)                    acaTGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCa                                                                    <  2:646163/91‑1 (MQ=255)                    acaTGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCa                                                                    >  1:379003/1‑91 (MQ=255)                     caTGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCaa                                                                   <  1:354070/91‑1 (MQ=255)                        gtgcgtgcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAac                                                                <  2:649769/91‑1 (MQ=255)                          gcgtgcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAacac                                                              <  1:172738/91‑1 (MQ=255)                          gcgtgcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAacac                                                              >  2:830210/1‑91 (MQ=255)                          gcgtgcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAacac                                                              <  1:834301/91‑1 (MQ=255)                          gcgtgcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAacac                                                              <  1:646314/91‑1 (MQ=255)                            gtgcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAg                                                            >  2:536882/1‑91 (MQ=255)                              gcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGcccc                                                                                    >  1:84046/1‑65 (MQ=255)                              gcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGcccc                                                                                    <  2:84046/65‑1 (MQ=255)                              gcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAgtg                                                          >  1:64526/1‑91 (MQ=255)                              gcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAgtg                                                          >  1:452432/1‑91 (MQ=255)                              gcCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAgtg                                                          >  1:481404/1‑91 (MQ=255)                                           tGGGCAGCCACAACGATATGACCTTTGGCGAAGGCCCCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTAcc                                             <  2:434170/91‑1 (MQ=255)                                            aggCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCg                                            >  1:751117/2‑91 (MQ=255)                                                 gCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGaa                                       >  1:732850/1‑91 (MQ=255)                                                     caACGATATGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACtgg                                   <  1:303837/91‑1 (MQ=255)                                                           tatGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACTGGTGGGTa                             <  2:126714/91‑1 (MQ=255)                                                            atGACCTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACTGGTGGGTAc                            <  2:751117/91‑1 (MQ=255)                                                                ccTTTGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACTGGTGGGTACAGcc                        <  2:64526/91‑1 (MQ=255)                                                                  tttGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACTGGTGGGTACAGCCtt                      >  1:407290/1‑91 (MQ=255)                                                                  tttGGCGAAGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACTGGTGGGTACAGCCtt                      >  1:69000/1‑91 (MQ=255)                                                                          aGGCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACTGGTGGGGACAGCCTTCTGTTATc              >  2:717816/1‑91 (MQ=255)                                                                            gCACCTCATCCCGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACTGGTGGGTACAGCCTTCTGTTATCCg            <  1:536882/91‑1 (MQ=255)                                                                                      ccGAGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACTGGTGGGTACAGCCTTCTGTTATCCGCACCTTCAGc  <  2:810559/91‑1 (MQ=255)                                                                                         |                                                                                        TCGGGCATGGCAGTGCACAACATGTGCGTGCCGGTTTCCGTCTGGGCAGCCACAACGATATGACCTTTGGCGAAGGCACCTCATCCCGTGCCCCCCTGCGTGACAGTGCAAAACACAGTGTGAGTGAATTACCGGTGAACTGGTGGGTACAGCCTTCTGTTATCCGCACCTTCAGC  >  NZ_CP009273/2067748‑2067923

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑