Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,911,703	G→A	intergenic (‑178/+136)	pstS ← / ← glmS	phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,911,703	0	G	A	100.0%	80.8 / NA	23	intergenic (‑178/+136)	pstS/glmS	phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (13/10);  total (13/10)

GAGAGATAAAGTCTTCAGTCTGATTTAAATAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAGATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGACGGTTTGTCACATGGAGTTGGCAGG  >  NC_000913/3911631‑3911778                                                                         |                                                                            gagagaTAAAGTCTTCAGTCTGATTTAAATAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAg                                                                      >  2:762968/1‑80 (MQ=255)       tAAAGTCTTCAGTCTGATTTAAATAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAAtt                                                               >  1:762989/1‑81 (MQ=255)                cAGTCTGATTTAAATAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCAtt                                                         <  1:762959/78‑1 (MQ=255)                cAGTCTGATTTAAATAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTc                                                        <  1:762958/79‑1 (MQ=255)                cAGTCTGATTTAAATAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCt                                                       <  2:762957/80‑1 (MQ=255)                 aGTCTGATTTAAATAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCtg                                                      <  1:762960/80‑1 (MQ=255)                      gATTTAAATAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGa                                                   >  1:762993/1‑78 (MQ=255)                           aaaTAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGaa                                            >  1:762998/1‑80 (MQ=255)                            aaTAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGaaa                                           >  2:762997/1‑80 (MQ=255)                             aTAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGaaa                                           >  2:763000/1‑79 (MQ=255)                                aGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAg                                        >  2:762992/1‑79 (MQ=255)                                      gATATTCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCg                                  >  2:762991/1‑79 (MQ=255)                                          ttCAGTCAATTACAAACATTAATAACGAAGGAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGAt                             <  2:762961/80‑1 (MQ=255)                                          ttCAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATg                            <  2:762962/81‑1 (MQ=255)                                            cAGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGa                           <  2:762963/80‑1 (MQ=255)                                             aGTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGAc                          <  1:762964/80‑1 (MQ=255)                                              gTCAATTACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGACgg                        >  1:762988/1‑81 (MQ=255)                                                   ttACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGACGGTTTGt                   >  2:762987/1‑81 (MQ=255)                                                   ttACAAACATTAATAACGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGACGGTTTGt                   <  2:762965/81‑1 (MQ=255)                                                               ataaCGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGACGGTTTGTCACATGGAGTTg       >  2:763005/1‑81 (MQ=255)                                                               ataaCGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGACGGTTTGTCACATGGAGTTg       >  2:763008/1‑81 (MQ=255)                                                                 aaCGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGACGGTTTGTCACATGGAGTTgg      >  2:763020/1‑80 (MQ=255)                                                                  aCGAAGAAATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGACGGTTTGTCACATGGAGTTGGCa    <  2:762966/81‑1 (MQ=255)                                                                    gaagaaATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGACGGTTTGTCACATGGAGTTGGCAgg  <  1:762967/81‑1 (MQ=255)                                                                         |                                                                            GAGAGATAAAGTCTTCAGTCTGATTTAAATAAGCGTTGATATTCAGTCAATTACAAACATTAATAACGAAGAGATGACAGAAAAATTTTCATTCTGTGACAGAGAAAAAGTAGCCGAAGATGACGGTTTGTCACATGGAGTTGGCAGG  >  NC_000913/3911631‑3911778

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