Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,850,005	T→A	Q144L (CAA→CTA)	hycA ←	regulator of the transcriptional regulator FhlA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,850,005	0	T	A	100.0%	137.4 / NA	39	Q144L (CAA→CTA)	hycA	regulator of the transcriptional regulator FhlA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (24/15);  total (24/15)

TCCCCAAACAGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTTGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGATTTTTTCGAGATAG  >  NC_000913/2849930‑2850082                                                                            |                                                                              tCCCCAAACAGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCtt                                                                          <  2:491271/81‑1 (MQ=255)  ccccAAACAGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCtt                                                                          >  2:491337/1‑80 (MQ=255)      aaaCAGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAAtt                                                                     <  1:491272/81‑1 (MQ=255)       aaCAGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAAtt                                                                     >  1:491303/1‑80 (MQ=255)       aaCAGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTc                                                                    <  2:491273/81‑1 (MQ=255)       aaCAGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCACGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAAtt                                                                     >  1:491329/1‑80 (MQ=255)        aCAGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCa                                                                   <  1:491274/81‑1 (MQ=255)          aGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCAcc                                                                 >  1:491316/1‑81 (MQ=255)          aGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCAcc                                                                 >  1:491331/1‑81 (MQ=255)            gCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCgg                                                               <  1:491275/81‑1 (MQ=255)                  cGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACAtt                                                         >  1:491327/1‑81 (MQ=255)                   gCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTg                                                        >  2:491313/1‑81 (MQ=255)                     cTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGtt                                                      >  2:491320/1‑81 (MQ=255)                        cAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGtttt                                                    >  2:491322/1‑80 (MQ=255)                        cAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGtttt                                                    <  2:491277/80‑1 (MQ=255)                        cAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGttt                                                     <  2:491276/79‑1 (MQ=255)                        cAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGttt                                                     <  1:491278/79‑1 (MQ=255)                         aaaaCGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTc                                                   >  1:491323/1‑80 (MQ=255)                           aaCGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCaa                                                 >  2:491314/1‑80 (MQ=255)                                gCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCgg                                           >  1:491336/1‑81 (MQ=255)                                gCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCgg                                           >  2:491311/1‑81 (MQ=255)                                 cAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGgt                                          >  2:491339/1‑81 (MQ=255)                                   aaGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGgtg                                         >  2:491325/1‑80 (MQ=255)                                            cTCATGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGt                               >  2:491335/1‑81 (MQ=255)                                               aTGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCg                             >  2:491333/1‑80 (MQ=255)                                               aTGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGt                            <  2:491280/81‑1 (MQ=255)                                               aTGCTGCCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGt                            <  1:491279/81‑1 (MQ=255)                                                    gcCGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACg                       >  2:491319/1‑81 (MQ=255)                                                      cGGGCTTTGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGc                      >  1:491332/1‑80 (MQ=255)                                                            ttGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGAt               >  1:491340/1‑81 (MQ=255)                                                             tGTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGAt               <  1:491281/80‑1 (MQ=255)                                                              gTCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGAttt             >  1:491355/1‑81 (MQ=255)                                                               tCCCTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGAttt             <  1:491282/80‑1 (MQ=255)                                                                cccTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGAttttt           >  2:491343/1‑81 (MQ=255)                                                                cccTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGAttttt           >  2:491351/1‑81 (MQ=255)                                                                 ccTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGAtttttt          <  1:491283/81‑1 (MQ=255)                                                                  cTTTACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGATTTTTTc         <  1:491284/81‑1 (MQ=255)                                                                    ttACCAGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGATTTTTTc         >  1:491334/1‑79 (MQ=255)                                                                         aGTAGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGATTTTTTCGAGATAg  <  2:491285/81‑1 (MQ=255)                                                                            |                                                                              TCCCCAAACAGGCGTAACGCCTGCAAAACGGGCAAAGCCTCAGCTCATGCTGCCGGGCTTTGTCCCTTTACCAGTTGGCTTAAATTCACCGGCACATTGTTTTCAATAGCGGTGTATAAGCTGTCGTAAACGCCAGCGATTTTTTCGAGATAG  >  NC_000913/2849930‑2850082

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑