Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,351,627	C→T	L1182L (CTG→TTG)	gltB →	glutamate synthase large subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,351,627	0	C	T	100.0%	114.1 / NA	31	L1182L (CTG→TTG)	gltB	glutamate synthase large subunit
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (13/18);  total (13/18)

CGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGCTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGTTTGTC  >  NZ_CP009273/3351493‑3351758                                                                                                                                       |                                                                                                                                    cGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGgc                                                                                                                                 >  2:77827/1‑139 (MQ=255) cGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGgc                                                                                                                                 >  1:291085/1‑139 (MQ=255) cGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGgc                                                                                                                                 >  2:606779/1‑139 (MQ=255)   aaTTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGgcgc                                                                                                                               <  2:275890/139‑1 (MQ=255)      tACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGt                                                                                                                            >  2:309627/1‑139 (MQ=255)           tGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGa                                                                                                                         <  2:357661/137‑1 (MQ=255)             aGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGa                                                                                                                         <  2:272198/135‑1 (MQ=255)             aGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTAGa                                                                                                                         >  1:272198/1‑135 (MQ=255)                 tATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAgctgct                                                                                                                  <  1:325030/138‑1 (MQ=255)                   tCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGga                                                                                                               <  1:269177/139‑1 (MQ=255)                              aCCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAAc                                                                                                    <  1:291866/139‑1 (MQ=255)                                   cgAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCAt                                                                                               <  1:77827/139‑1 (MQ=255)                                   cgAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCAt                                                                                               <  1:418242/139‑1 (MQ=255)                                             gCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAgg                                                                                     <  1:187942/139‑1 (MQ=255)                                             gCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAgg                                                                                     <  2:423124/139‑1 (MQ=255)                                               acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCa                                                                                   <  1:606779/139‑1 (MQ=255)                                               acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCa                                                                                   <  1:529111/139‑1 (MQ=255)                                                 aGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCAct                                                                                 >  2:13090/1‑139 (MQ=255)                                                        cGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGCAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTg                                                                           >  1:390969/1‑138 (MQ=255)                                                             cacGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCg                                                                      >  2:499322/1‑138 (MQ=255)                                                                     gtggATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAAcc                                                             >  2:452572/1‑139 (MQ=255)                                                                        gATCTGGTTGGTCGCCCCGACCTGCTGAAAGAGCTGGACGGTTGCACCGCAAAACAGCGGAAGTTGGCGCTGTCGAAGCTGCTGGGGACTGCCGAGCCGCATCCAGGTAAGGCACTCTACTGCACCGAAATCAACccgc                                                          <  2:147395/139‑1 (MQ=255)                                                                           cTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACt                                                                            <  1:429579/118‑1 (MQ=255)                                                                           cTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACt                                                                            >  2:429579/1‑118 (MQ=255)                                                                                      cACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGa                                                                                                                         >  2:460063/1‑62 (MQ=255)                                                                                      cACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGa                                                                                                                         <  1:460063/62‑1 (MQ=255)                                                                                           aCCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCctgct                                       >  2:244375/1‑139 (MQ=255)                                                                                                               ggTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAAc                   <  2:131233/139‑1 (MQ=255)                                                                                                                       cGCCAAACAGCAGAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGACCCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGaaa           <  2:516813/139‑1 (MQ=255)                                                                                                                               agcagAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACACCCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGTTTGt   <  1:9489/139‑1 (MQ=255)                                                                                                                                 cagAAGTTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGTTTGTc  >  1:403567/1‑138 (MQ=255)                                                                                                                                       |                                                                                                                                    CGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGCTGGCGCTGTCGAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGTTTGTC  >  NZ_CP009273/3351493‑3351758

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑