Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,089,695	C→A	S54I (AGT→ATT)	frvR ←	putative transcriptional regulator FrvR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,089,695	0	C	A	100.0%	90.4 / NA	26	S54I (AGT→ATT)	frvR	putative transcriptional regulator FrvR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (13/13);  total (13/13)

GGGGAGTGAAAGTATTCAGTAATAACAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCACTGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTCCTGCCTGAAACGCCAGTCTGTTGCGCCAGCTCGCCAGGCGTGCGCGGCTGTTGCTCCAGCAGATCGA  >  NC_000913/4089576‑4089827                                                                                                                        |                                                                                                                                     ggggAGTGAAAGTATTCAGTAATAACAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTg                                                                                                                  >  1:388044/1‑140 (MQ=255)      gTGAAAGTATTCAGTAATAACAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGtt                                                                                                             >  2:329165/1‑140 (MQ=255)      gTGAAAGTATTCAGTAATAACAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGtt                                                                                                             <  1:480096/140‑1 (MQ=255)           aGTATTCAGTAATAACAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAggg                                                                                                        <  2:388044/140‑1 (MQ=255)             tATTCAGTAATAACAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTg                                                                                                      >  2:466845/1‑140 (MQ=255)             tATTCAGTAATAACAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTg                                                                                                      >  1:94069/1‑140 (MQ=255)               ttCAGTAATAACAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGaa                                                                                                    >  1:398396/1‑140 (MQ=255)               ttCAGTAATAACAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGaa                                                                                                    >  1:257476/1‑140 (MQ=255)                    taataaCAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTga                                                                                               >  1:422995/1‑140 (MQ=255)                     aataaCAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTgag                                                                                              <  2:422995/140‑1 (MQ=255)                         aCAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAg                                                                                          >  1:6706/1‑140 (MQ=255)                             cgcCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGt                                                                                                       >  1:58579/1‑123 (MQ=255)                             cgcCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGt                                                                                                       <  2:58579/123‑1 (MQ=255)                                  gcagcCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCa                                                                                 >  2:401106/1‑140 (MQ=255)                                    agcCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACg                                                                               <  1:401106/140‑1 (MQ=255)                                        gATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAgg                                                                           <  2:6706/140‑1 (MQ=255)                                                ttATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTcct                                                                   >  1:6004/1‑140 (MQ=255)                                                   tCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTcctgcc                                                                <  1:329165/140‑1 (MQ=255)                                                             gcagcaACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTCCTGCCTGAAACGCCa                                                      >  2:159118/1‑140 (MQ=255)                                                                           aaGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTCCTGCCTGAAACGCCAGTCTGTTGCGCCAg                                        <  2:398396/140‑1 (MQ=255)                                                                           aaGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTCCTGCCTGAAACGCCAGTCTGTTGCGCCAg                                        <  1:357288/140‑1 (MQ=255)                                                                             gCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTCCTGCCTGAAACGCCAGTCTGTTGCGCCAGCt                                      <  2:198797/140‑1 (MQ=255)                                                                                           aGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTCCTGCCTGAAACGCCAGTCTGTTGCGCCAGCt                                      <  2:317637/126‑1 (MQ=255)                                                                                           aGATTTCCAGCTGATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTCCTGCCTGAAACGCCAGTCTGTTGCGCCAGCt                                      >  1:317637/1‑126 (MQ=255)                                                                                                       gATAGCCCGCACTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTCCTGCCTGAAACGCCAGTCTGTTGCGCCAGCTCGCCAGGCGTGCGCGGCTGTTGCTcc            <  2:257476/140‑1 (MQ=255)                                                                                                                 aCTGCCAATGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTCCTGCCTGAAACGCCAGTCTGTTGCGCCAGCTCGCCAGGCGTGCGCGGCTGATGCTCCAGCAGATCGa  <  2:6004/140‑1 (MQ=255)                                                                                                                        |                                                                                                                                     GGGGAGTGAAAGTATTCAGTAATAACAGCGCCAGCAGCCGATCGTCGTTATCGTGCTTTTGCAGCAACTGAAAAAAGCTGCGGCGCTCGAAGATTTCCAGCTGATAGCCCGCACTGCCACTGGCGAAAATGCGGGCTTTGCCGTTAAGGGTGAAGTTGAGATAGTCAATATCACGCAGGATGGTCCTGCCTGAAACGCCAGTCTGTTGCGCCAGCTCGCCAGGCGTGCGCGGCTGTTGCTCCAGCAGATCGA  >  NC_000913/4089576‑4089827

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑