Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,657,601	G→A	intergenic (+34/+385)	hdeD → / ← arrS	acid‑resistance membrane protein/small regulatory RNA ArrS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,657,601	0	G	A	100.0%	79.8 / NA	23	intergenic (+34/+385)	hdeD/arrS	acid‑resistance membrane protein/small regulatory RNA ArrS
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (4/19);  total (4/19)

GCCAGCCTGTTCAGCTTCGCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTGATGTGACTATGATCCGATTAATACTCTCTCCGCTACGCAGTGTTGTAGATCAATTGCGCACTATCATTGAAAT  >  NC_000913/3657523‑3657674                                                                               |                                                                          gccAGCCTGTTCAGCTTCGCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAAt                                                                         <  2:706131/81‑1 (MQ=255)  ccAGCCTGTTCAGCTTCGCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAAtg                                                                        <  1:706133/81‑1 (MQ=255)  ccAGCCTGTTCAGCTTCGCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAAtg                                                                        <  2:706132/81‑1 (MQ=255)   cAGCCTGTTCAGCTTCGCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAAtgt                                                                       <  2:706134/81‑1 (MQ=255)     gCCTGTTCAGCTTCGCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGa                                                                     <  1:706135/81‑1 (MQ=255)       cTGTTCAGCTTCGCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACt                                                                   <  2:706136/81‑1 (MQ=255)         gTTCAGCTTCGCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACTAt                                                                 >  2:706166/1‑81 (MQ=255)              gCTTCGCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATcc                                                            <  1:706137/81‑1 (MQ=255)                   gCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGAtt                                                        >  2:706169/1‑80 (MQ=255)                   gCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGAtt                                                        <  2:706138/80‑1 (MQ=255)                          tGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATActc                                                 <  2:706139/80‑1 (MQ=255)                              cGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATACtctctc                                             <  1:706140/80‑1 (MQ=255)                               gTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATACTCTCTcc                                            <  1:706142/80‑1 (MQ=255)                               gTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATACTCTCTcc                                            <  1:706141/80‑1 (MQ=255)                                   agcagcAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATACTCTCTCCGCTa                                        <  1:706143/80‑1 (MQ=255)                                             atTACCCCGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATACTCTCTCCGCTACGCAGtgttgt                             <  1:706144/81‑1 (MQ=255)                                                 ccccGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATACTCTCTCCGCTACGCAGTGTTGTAGa                          <  1:706145/80‑1 (MQ=255)                                                  cccGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATACTCTCTCCGCTACGCAGTGTTGTAGATc                        <  1:706146/81‑1 (MQ=255)                                                    cGGTTGTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATACTCTCTCCGCTACGCAGTGTTGTAGATCaa                      <  1:706147/81‑1 (MQ=255)                                                         gTCACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATACTCTCTCCGCTACGCAGTGTTGTAGATCAATTgc                  <  2:706148/80‑1 (MQ=255)                                                           cACCCGGATCATAGTCACTTAATGTGACTATGATCCGATTAATACTCTCTCCGCTACGCAGTGTTGTAGATCAATTGCGCa               >  2:706167/1‑81 (MQ=255)                                                                  aTCATAGTCACTTAATGTGACTATGATCCGATTAATACTCTCTCCGCTACGCAGTGTTGTAGATCAATTGCGCACTATCAt        >  1:706165/1‑81 (MQ=255)                                                                        gTCACTTAATGTGACTATGATCCGATTAATACTCTCTCCGCTACGCAGTGTTGTAGATCAATTGCGCACTATCATTGAaat  <  2:706149/81‑1 (MQ=255)                                                                               |                                                                          GCCAGCCTGTTCAGCTTCGCCAGTTTGTTCGTTAAGCAGCAATAATTACCCCGGTTGTCACCCGGATCATAGTCACTTGATGTGACTATGATCCGATTAATACTCTCTCCGCTACGCAGTGTTGTAGATCAATTGCGCACTATCATTGAAAT  >  NC_000913/3657523‑3657674

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑