Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	469,392	T→C	L324P (CTC→CCC)	amtB →	ammonium transporter AmtB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	469,392	0	T	C	100.0%	131.7 / NA	39	L324P (CTC→CCC)	amtB	ammonium transporter AmtB
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (16/23);  total (16/23)

CACTGCTGGGGGCGTGTTCTGGCGCGATTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCTCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCAGCTCGCTGGGCGGCGTGGGCTTCGCTGAAGGTGTGAC  >  NZ_CP009273/469257‑469527                                                                                                                                        |                                                                                                                                        cACTGCTGGGGGCGTGTTCTGGCGCGATTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCa                                                                                                                                       >  2:457192/1‑138 (MQ=255) cACTGCTGGGGGCGTGTTCTGGCGCGATTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCa                                                                                                                                       >  2:534278/1‑138 (MQ=255)                gtTCTGGCGCGATTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGt                                                                                                                       >  1:865876/1‑139 (MQ=255)                      gcggGATTGTCGGCCTGGTGGGCGTGACGCCAGCCTTCGGCTACATTGGGGTTGGCGTCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGTGTGgat                                                                                                                   <  2:804251/137‑1 (MQ=255)                      gcgcGATTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGgat                                                                                                                   <  2:865876/137‑1 (MQ=255)                      gcgcGATTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGgat                                                                                                                   <  2:550710/137‑1 (MQ=255)                       cgcgATTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGgatgat                                                                                                                <  2:331531/139‑1 (MQ=255)                       cgcgATTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGgatgat                                                                                                                <  2:238953/139‑1 (MQ=255)                           aTTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTtgctg                                                                                                                            <  2:95786/123‑1 (MQ=255)                           aTTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTtgctg                                                                                                                            >  1:95786/1‑123 (MQ=255)                           aTTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCt                                                                                                            >  1:782997/1‑139 (MQ=255)                               ccGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCg                                                                                                         <  1:534278/138‑1 (MQ=255)                               ccGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGa                                                                                                        <  1:528830/139‑1 (MQ=255)                                            cGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGtgtg                                                                                           <  1:457192/139‑1 (MQ=255)                                                    cAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGt                                                                                   <  1:492633/139‑1 (MQ=255)                                                      gCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGgat                                                                                                                   <  2:449200/105‑1 (MQ=255)                                                      gCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGgat                                                                                                                   >  1:449200/1‑105 (MQ=255)                                                           cGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTgg                                                                             >  1:569926/1‑138 (MQ=255)                                                              cTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCAtt                                                                         <  1:848883/139‑1 (MQ=255)                                                                 cATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGt                                                                       <  2:569926/138‑1 (MQ=255)                                                                     ggggTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGc                                                                   <  2:133747/138‑1 (MQ=255)                                                                     ggggTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGc                                                                   <  1:720043/138‑1 (MQ=255)                                                                      gggTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCt                                                                  <  1:414513/138‑1 (MQ=255)                                                                           ggcggcGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCCAACGCTTGCTGCGGGTGGGTGATCCCTGCGGTGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCa                                                            >  2:22131/1‑139 (MQ=255)                                                                           ggcggcGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCggg                                                                                                                        >  2:641668/1‑79 (MQ=255)                                                                           ggcggcGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCggg                                                                                                                        <  1:641668/79‑1 (MQ=255)                                                                           ggcggcGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGGGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCa                                                            >  2:426375/1‑139 (MQ=255)                                                                           ggcggcGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGGGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCa                                                            >  1:206276/1‑139 (MQ=255)                                                                                                                    cTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGc                                                                                     >  2:647969/1‑73 (MQ=255)                                                                                                                    cTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGc                                                                                     <  1:647969/73‑1 (MQ=255)                                                                                                                    cTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCAGCTCGCTGGGCGGCGTGGGc                   <  2:402011/139‑1 (MQ=255)                                                                                                                    cTTGTGGGGCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCAGCTCGCTGGGCGGCGTGGGc                   <  2:435564/139‑1 (MQ=255)                                                                                                                            gCGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCAGCTCGCTGGGCGGCGTGGGCTTCGCTGa           <  2:206276/139‑1 (MQ=255)                                                                                                                             cGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCg                                                                                                         >  1:690253/1‑44 (MQ=255)                                                                                                                             cGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCg                                                                                                         <  2:690253/44‑1 (MQ=255)                                                                                                                             cGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCAGCTCGCTGGGCGGCGTGGGCTTCGCt             >  1:778785/1‑136 (MQ=255)                                                                                                                             cGTTACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCAGCTCGCTGGGCGGCGTGGGCTTCGCt             <  2:778785/136‑1 (MQ=255)                                                                                                                               ttACCATGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCAGCTCGCTGGGCGGCGTGGGCTTCGCTGAAgg        >  2:353884/1‑139 (MQ=255)                                                                                                                                     tGCCCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCAGCTCGCTGGGCGGCGTGGGCTTCGCTGAAGGTGTGAc  >  2:737928/1‑139 (MQ=255)                                                                                                                                        |                                                                                                                                        CACTGCTGGGGGCGTGTTCTGGCGCGATTGCCGGTCTGGTCGGCGTGACGCCAGCCTGCGGCTACATTGGGGTTGGCGGCGCGTTGATTATCGGCGTGGTAGCTGGTCTGGCGGGCTTGTGGGGCGTTACCATGCTCAAACGCTTGCTGCGGGTGGATGATCCCTGCGATGTCTTCGGTGTGCACGGCGTTTGTGGCATTGTCGGCTGTATCATGACCGGGATTTTTGCCGCCAGCTCGCTGGGCGGCGTGGGCTTCGCTGAAGGTGTGAC  >  NZ_CP009273/469257‑469527

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑