Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	3,532,412	T→C	M236T (ATG→ACG)	cpxA →	sensory histidine kinase in two‑component regulatory system with CpxR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	3,532,412	0	T	C	100.0%	86.5 / NA	24	M236T (ATG→ACG)	cpxA	sensory histidine kinase in two‑component regulatory system with CpxR
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (12/12);  total (12/12)

GCCAGTTTTAACCAGATGGTCACCGCGCTGGAGCGCATGATGACCTCTCAGCAGCGTCTGCTTTCTGATATCTCTCACGAGCTGCGCACCCCGCTGACG  >  W3110S.gb/3532372‑3532470                                         |                                                           gCCAGTTTTAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCtctc                                                    <  1:3093652/49‑1 (MQ=255) gCCAGTTTTAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCtctc                                                    <  1:754184/49‑1 (MQ=255) gCCAGTTTTAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCtctc                                                    <  1:518136/49‑1 (MQ=255) gCCAGTTTTAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCtctc                                                    <  1:3746041/49‑1 (MQ=255) gCCAGTTTTAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCtctc                                                    <  1:2387768/49‑1 (MQ=255) gCCAGTTTTAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCtctc                                                    <  1:2318784/49‑1 (MQ=255)      ttttAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCt                                   >  1:4460779/1‑61 (MQ=255)      ttttAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCt                                   >  1:4453590/1‑61 (MQ=255)      ttttAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCt                                   >  1:4313044/1‑61 (MQ=255)      ttttAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCt                                   >  1:3841561/1‑61 (MQ=255)        ttAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGat                                >  1:2735347/1‑62 (MQ=255)        ttAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGat                                >  1:3467113/1‑62 (MQ=255)        ttAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGat                                >  1:3267594/1‑62 (MQ=255)        ttAACCAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGa                                 >  1:2634711/1‑61 (MQ=255)            ccAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGATAtc                             <  1:1535371/61‑1 (MQ=255)            ccAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGATAtc                             <  1:3090570/61‑1 (MQ=255)            ccAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGATAtc                             <  1:2138176/61‑1 (MQ=255)            ccAGATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGATAtc                             <  1:2336195/61‑1 (MQ=255)               gATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGATAtctctc                         >  1:1472572/1‑62 (MQ=255)               gATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGATAtctctc                         >  1:4283710/1‑62 (MQ=255)               gATGGTCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGATAtctctc                         >  1:2575249/1‑62 (MQ=255)                    tCACCGCGCTGGAGCGCATGACGACCTCTCAGCAGCGTCTGCTTTCTGATATCTCTCACGAg                    >  1:1994629/1‑62 (MQ=255)                                 gcgcATGACGACCTCTCAGCAGCGTCTGCTTTCTGATATCTCTCACGAGCTGCGCACCCCg        <  1:2672764/61‑1 (MQ=255)                                 gcgcATGACGACCTCTCAGCAGCGTCTGCTTTCTGATATCTCTCACGAGCTGCGCACCCCg        <  1:1593697/61‑1 (MQ=255)                                      tgacgaCCTCTCAGCAGCGTCTGCTTTCTGATATCTCTCACGAGCTGCGCACCCCGCTGAcg  <  1:4101883/62‑1 (MQ=255)                                      tgacgaCCTCTCAGCAGCGTCTGCTTTCTGATATCTATCACGAGCTGCGCACCCCGCTGAcg  <  1:681947/62‑1 (MQ=255)                                         |                                                           GCCAGTTTTAACCAGATGGTCACCGCGCTGGAGCGCATGATGACCTCTCAGCAGCGTCTGCTTTCTGATATCTCTCACGAGCTGCGCACCCCGCTGACG  >  W3110S.gb/3532372‑3532470

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑