Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,798,536	T→C	intergenic (‑41/‑628)	stpA ← / → alaE	DNA‑binding transcriptional repressor StpA with RNA chaperone activity/L‑alanine exporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,798,536	0	T	C	100.0%	83.6 / NA	24	intergenic (‑41/‑628)	stpA/alaE	DNA‑binding transcriptional repressor StpA with RNA chaperone activity/L‑alanine exporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (11/13);  total (11/13)

TCGAGCATTTCTTCAAGAACGTCAATGGAGAATTCGCGAGCCATCGCACGGAGGGTGCGAATGTTATTTAAACTTTGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTTCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACTCTCAGAATAATTTCAAGATTATATATTAGCCATTTTGAT  >  NC_000913/2798404‑2798672                                                                                                                                     |                                                                                                                                         tCGAGCATTTCTTCAAGAACGTCAATGGAGAATTCGCGAGCCATCGCACGGAGGGTGCGAATGTTATTTAAACTTTGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTcgcg                                                                                                                                   <  2:277141/140‑1 (MQ=255)       aTTTCTTCAAGAACGTCAATGGAGAATTCGCGAGCCATCGCACGGAGGGTGCGAATGTTATTTAAACTTTGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAgtgt                                                                                                                             <  1:529537/140‑1 (MQ=255)              cAAGAACGCCAATGGAGAATTCGCGAGCCATCGCACGGAGGGTGCGAATGTTATTTAAACTTTGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGAt                                                                                                                      <  1:93577/140‑1 (MQ=255)                                aTTCGCGAGCCATCGCACGGAGGGTGCGAATGTTATTTAAACTTTGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCcac                                                                                                    >  1:141884/1‑140 (MQ=255)                                           aTCGCACGGAGGGTGCGAATGTTATTTAAACTTTGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATc                                                                                         >  1:432459/1‑140 (MQ=255)                                                              tGTTATTTAAACTTTGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCga                                                                      >  2:511892/1‑140 (MQ=255)                                                                            tGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAg                                                           <  2:67576/137‑1 (MQ=255)                                                                            tGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAg                                                           >  1:67576/1‑137 (MQ=255)                                                                            tGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTg                                                        >  2:389657/1‑140 (MQ=255)                                                                                      cGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTg                                              >  1:170156/1‑140 (MQ=255)                                                                                         aCATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGaaa                                           <  2:170156/140‑1 (MQ=255)                                                                                             aataaAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGa                                             >  1:400335/1‑134 (MQ=255)                                                                                             aataaAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGa                                             <  2:400335/134‑1 (MQ=255)                                                                                             aataaAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAActct                                       <  1:444785/140‑1 (MQ=255)                                                                                             aataaAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAActct                                       <  1:209910/140‑1 (MQ=255)                                                                                              ataaAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACtctc                                      >  2:52630/1‑140 (MQ=255)                                                                                                   gAAAACCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACTCTCAGaat                                 <  2:235864/140‑1 (MQ=255)                                                                                                     aaaCCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACTCTCAGaataa                               >  2:536977/1‑140 (MQ=255)                                                                                                       aCCTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACTCTCAGAATAAtt                             >  1:231009/1‑140 (MQ=255)                                                                                                        ccTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACTCTCAGAATAAttt                            <  2:427685/140‑1 (MQ=255)                                                                                                         cTTTTAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACTCTCAGAATAATTTc                           <  2:535016/140‑1 (MQ=255)                                                                                                          ttttAACGCCAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACTCTCAGAATAATTTCa                          <  2:231009/140‑1 (MQ=255)                                                                                                                  ccAAAACAAAAAAAGTATTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACTCTCAGAATAATTTCAAGATtata                  >  2:410744/1‑140 (MQ=255)                                                                                                                                  aTTCCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACTCTCAGAATAATTTCAAGATTATATATTAGCCATTTtgat  <  2:141884/140‑1 (MQ=255)                                                                                                                                     |                                                                                                                                         TCGAGCATTTCTTCAAGAACGTCAATGGAGAATTCGCGAGCCATCGCACGGAGGGTGCGAATGTTATTTAAACTTTGTAACATTACGGACATAATAAAGAAAACCTTTTAACGCCAAAACAAAAAAAGTATTTCGTCGCGTAGTGTAAGCGATCACTTATTATATTTCCACAAAATTTAATCTATTTACAGTCCTGCGCGAGATTATTTCAGCTGTTATTTTCTGAAACTCTCAGAATAATTTCAAGATTATATATTAGCCATTTTGAT  >  NC_000913/2798404‑2798672

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑