Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP009974	1,897,027	4 bp→GACC	intergenic (‑4805/‑3789)	RPPX_08470 ← / → RPPX_08480	tryptophan synthase subunit beta/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009974	1,897,027	0	C	G	100.0%	19.2 / NA	19	intergenic (‑4805/‑3792)	RPPX_08470/RPPX_08480	tryptophan synthase subunit beta/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base G (9/10);  total (9/10)
*	CP009974	1,897,028	0	G	A	100.0%	18.9 / NA	19	intergenic (‑4806/‑3791)	RPPX_08470/RPPX_08480	tryptophan synthase subunit beta/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (9/10);  total (9/10)
*	CP009974	1,897,029	0	T	C	100.0%	19.3 / NA	19	intergenic (‑4807/‑3790)	RPPX_08470/RPPX_08480	tryptophan synthase subunit beta/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (9/10);  total (9/10)
*	CP009974	1,897,030	0	G	C	100.0%	19.3 / NA	19	intergenic (‑4808/‑3789)	RPPX_08470/RPPX_08480	tryptophan synthase subunit beta/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (9/10);  total (9/10)

GTCCAGCGCCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATCGTGGTCTGA‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAACTTGCCAACGTCC  >  CP009974/1896922‑1897081                                                                                                          ||||                                                     gTCCAGCGCCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTCGAG‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTg           <  2:3755251/151‑1 (MQ=11)  tCCAGCGCCTGGCTCACTTTCAGAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTCGAG‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGc          >  2:4830471/1‑151 (MQ=11)   ccAGCGCCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTCGAG‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGcc         <  1:4248043/151‑1 (MQ=11)   ccAGCGCCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTC‑GAGGCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGcc         <  2:2527334/151‑1 (MQ=11)    cAGCGCCTGGCTCACTTTCCCAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTC‑GAGGCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccg        <  2:3620689/151‑2 (MQ=11)    cAGCGCCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTC‑GAGGCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccg        <  1:4890205/151‑2 (MQ=11)    cAGCGCCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTC‑GAGGCCGGCGTCGGGTTCGGGGCCAGTTGCTCGAAGTTGccg        >  2:3959584/1‑150 (MQ=11)     aGCGCCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTCGAG‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgc       >  1:3264377/1‑149 (MQ=11)     aGCGCCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTC‑GAGGCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgc       <  1:966047/151‑3 (MQ=11)     aGCGCCTGGCTCACTTGCACAGGAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTCGAG‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgc       <  2:4730881/151‑3 (MQ=11)      gcgcCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTCGAG‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgcc      >  2:1274501/1‑148 (MQ=1)       cgcCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTC‑GAGGCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgccc     <  2:2627404/151‑5 (MQ=11)        gcCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTCGAG‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgcccg    <  2:3264225/151‑6 (MQ=11)        gcCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTCGAG‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgcccg    >  1:4133062/1‑146 (MQ=1)        gcCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTC‑GAGGCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgcccg    >  2:1769098/1‑146 (MQ=1)        gcCGGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTC‑GAGGCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgcccg    <  2:4791902/151‑6 (MQ=11)         ccTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTCGAG‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgcccgt   >  1:4935977/1‑145 (MQ=11)         ccTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTC‑GAGGCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgcccgt   >  1:4935996/1‑145 (MQ=1)          cTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATGACCGTCGAG‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAAGTTGccgcccgtg  >  2:3908472/1‑144 (MQ=1)                                                                                                          ||||                                                     GTCCAGCGCCTGGCTCACTTTCACAGTAAAGGAAGGTTGCTGGTCTTCGGTCACATTGCCATTGCTGACAATGCTTACGGTGACGGCATCGATGCTGTCATTGATCGTGGTCTGA‑GCCGGCGTCGGGTTCGGGGTCAGTTGCTCGAACTTGCCAACGTCC  >  CP009974/1896922‑1897081

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑