Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,660,392	Δ1 bp	coding (549/1401 nt)	gadA ←	glutamate decarboxylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,660,389	0	G	.	100.0%	37.2 / NA	19	coding (552/1401 nt)	gadA	glutamate decarboxylase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (8/11);  total (8/11)

ATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACCGGGGCGCATAGGGATCTCACGCAGCTCCACATCCCAGTAGCGGGCGAAT  >  NZ_CP009273/3660253‑3660437                                                                                                                                         |                                                 aTTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACCggg                                                <  2:667443/139‑1 (MQ=32) aTTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACCggg                                                <  2:361422/139‑1 (MQ=32)    tATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACCgggcg                                              >  2:704540/1‑136 (MQ=17)     aTCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACCgggcgca                                            >  1:1090281/1‑135 (MQ=17)     aTCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACCgggcgca                                            >  1:253677/1‑135 (MQ=17)        cAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAg                                        <  1:1217777/139‑1 (MQ=17)        cAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAg                                        <  2:218681/139‑1 (MQ=17)        cAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAg                                        <  2:1030967/139‑1 (MQ=17)           cgcATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGa                                     >  1:1246473/1‑139 (MQ=17)                  tGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCa                                >  1:435618/1‑137 (MQ=17)                  tGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCa                                <  2:435618/137‑1 (MQ=17)                  tGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACg                              <  2:515672/139‑1 (MQ=17)                     aGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACGCAg                           <  2:806377/139‑1 (MQ=17)                        ggTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACGCAGCTc                        <  2:673848/139‑1 (MQ=17)                          ttGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACGCAGCTCca                      <  2:1246473/139‑1 (MQ=17)                          ttGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACGCAGCTCca                      >  2:372527/1‑139 (MQ=17)                          ttGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACGCAGCTCca                      <  2:528297/139‑1 (MQ=17)                            gtgGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACGCAGCTCcaca                    >  2:1089277/1‑139 (MQ=17)                            gtgGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACGCAGCTCcaca                    >  1:190155/1‑139 (MQ=17)                               ggAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACGCAGCTCCACATcc                 <  1:704540/139‑1 (MQ=17)                                    tCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACGCAGCTCCACATCCCAg              >  2:390096/1‑137 (MQ=17)                                              cGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCa                                <  1:474624/109‑1 (MQ=14)                                              cGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCa                                >  2:474624/1‑109 (MQ=14)                                              cGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACC‑GGGCGCATAGGGATCTCACGCAGCTCCACATCCCAGTAGCGGGCGAAt  >  2:1082687/1‑139 (MQ=14)                                                                                                                                         |                                                 ATTTATCCAGCGCATCGTGCAGCGGTTGTGGGAACTCATAGTTACCGGTGTAGGTCACGCCGAAAGTCGGCACCACGCCGATGGTGTTTTCGTCACAGGCTTCAATCATGCGTTTCGGGTCCATAAACAACTGACCGGGGCGCATAGGGATCTCACGCAGCTCCACATCCCAGTAGCGGGCGAAT  >  NZ_CP009273/3660253‑3660437

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑