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%	115.5 / NA	30	L1182L (CTG→TTG)	gltB	glutamate synthase large subunit
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (9/21);  total (9/21)

CGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGCTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGT  >  NZ_CP009273/3351493‑3351753                                                                                                                                       |                                                                                                                                cGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGgc                                                                                                                             <  2:73381/139‑1 (MQ=255)           tGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAg                                                                                                                  >  1:471289/1‑139 (MQ=255)                  aTCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGctgctg                                                                                                            >  1:316705/1‑138 (MQ=255)                   tCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGga                                                                                                          <  2:471289/139‑1 (MQ=255)                     gCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGgaga                                                                                                        <  1:56890/139‑1 (MQ=255)                        cGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTg                                                                                                     >  2:161679/1‑139 (MQ=255)                              aCCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAAc                                                                                               <  1:61471/139‑1 (MQ=255)                                  gcgAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCa                                                                                           <  1:51364/139‑1 (MQ=255)                                   cgAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCAt                                                                                          <  2:59234/139‑1 (MQ=255)                                     aGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATcc                                                                                        <  2:316705/139‑1 (MQ=255)                                          aTGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTa                                                                                   <  1:234822/139‑1 (MQ=255)                                              cacaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAgg                                                                                <  1:223995/138‑1 (MQ=255)                                                      ggCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACt                                                                       >  2:238539/1‑139 (MQ=255)                                                             cacGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAgg                                                                                <  1:310846/123‑1 (MQ=255)                                                             cacGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAgg                                                                                >  2:310846/1‑123 (MQ=255)                                                               cGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGaaa                                                              <  1:238539/139‑1 (MQ=255)                                                                  cTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAaac                                                            >  2:144695/1‑138 (MQ=255)                                                                   cggtggtTTTGTTTGGCCCCACCGCCCTGCTGAAAGAGCTGGACGGTTCCCCCGCCAAACAGCAGAGGTGGGCGC‑GTCGGAAGCTGCGGGAGACTCCCGAACCCCTCCCAGGTAAGGCACCCTCCTGCACCAAAacca                                                           <  2:446010/137‑1 (MQ=255)                                                                     gtggAGCTGGTTGGTGGCACCGCCCTGCTGAAAGAGCGGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGAATCCAGGTAAGGCGCTTTACTGCCCCGAAAACAccc                                                        <  2:159541/139‑1 (MQ=255)                                                                              aTTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGtt                                                 <  2:487098/137‑1 (MQ=255)                                                                                  gTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATa                                            <  1:32624/138‑1 (MQ=255)                                                                                        ccGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCct                                     <  1:50351/139‑1 (MQ=255)                                                                                                ctgAAAGAGCTGGACGTTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAAcg                             <  2:355688/139‑1 (MQ=255)                                                                                                   aaaGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAAcgcg                           <  1:363080/138‑1 (MQ=255)                                                                                                                   tCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAAc                                                                                               <  2:407493/54‑1 (MQ=255)                                                                                                                   tCACCGCCAAACAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAAc                                                                                               >  1:407493/1‑54 (MQ=255)                                                                                                                       gggcAAACAGCAGAGGTTGGCGCTGTC‑GAAGCTACTGGAGAGTGCGGAACCGGATGCAGGAAAGGCACGATACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGaaa      <  1:427737/136‑1 (MQ=255)                                                                                                                           aaaCAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCAc                                                                             >  1:334877/1‑64 (MQ=255)                                                                                                                           aaaCAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCAc                                                                             <  2:334877/64‑1 (MQ=255)                                                                                                                           aaaCAGCAGAAGTTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGt  >  1:420159/1‑139 (MQ=255)                                                                                                                                       |                                                                                                                                CGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGTTTCACCGCCAAACAGCAGAAGCTGGCGCTGTC‑GAAGCTGCTGGAGACTGCCGAACCGCATCCAGGTAAGGCACTCTACTGCACCGAAAACAACCCGCCGTTTGATAACGGCCTGCTGAACGCGCAGTTGCTGCAACAGGCGAAACCGT  >  NZ_CP009273/3351493‑3351753

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑