Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,188,434	A→G	V448A (GTA→GCA)	phoQ ←	sensory histidine kinase in two‑component regulatory system with PhoP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,188,434	0	A	G	100.0%	157.1 / NA	44	V448A (GTA→GCA)	phoQ	sensory histidine kinase in two‑component regulatory system with PhoP
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (23/21);  total (23/21)

GCTGGCGACCAAAAATCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTACCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCGCTTGCTTAATGGAATACCGGGG  >  NC_000913/1188339‑1188526                                                                                                |                                                                                             gCTGGCGACCAAAAATCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGc                                                                                          >  1:815314/1‑100 (MQ=255)    ggCGACCAAAAATCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAg                                                                                       >  1:415962/1‑100 (MQ=255)     gCGACCAAAAATCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGc                                                                                      <  1:176501/100‑1 (MQ=255)     gCGACCAAAAATCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGc                                                                                      <  1:1178492/100‑1 (MQ=255)       gACCAAAAATCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGccc                                                                                    >  1:466664/1‑100 (MQ=255)         ccAAAAATCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTa                                                                                  >  2:657777/1‑100 (MQ=255)            aaaaTCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTacac                                                                               >  1:892673/1‑100 (MQ=255)             aaaTCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACAcc                                                                              <  1:1033430/100‑1 (MQ=255)                tCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTg                                                                           >  2:1283509/1‑100 (MQ=255)                   ccTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGccc                                                                        >  1:929115/1‑100 (MQ=255)                   ccTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGccc                                                                        >  1:291741/1‑100 (MQ=255)                    cTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCa                                                                       <  1:129148/100‑1 (MQ=255)                         tCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCg                                                                  <  1:1270681/100‑1 (MQ=255)                         tCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCg                                                                  >  1:1156563/1‑100 (MQ=255)                          ccGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGt                                                                 <  1:350646/100‑1 (MQ=255)                            gcgcACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTaa                                                               <  1:1157749/100‑1 (MQ=255)                             cgcACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGTCGCCAGCCCTACACCTTGCCCAGGGCGTaaa                                                              >  2:1259504/1‑100 (MQ=255)                               cACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGt                                                            >  2:1202573/1‑100 (MQ=255)                                     ccAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAAc                                                      <  2:929107/100‑1 (MQ=255)                                     ccAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGACCTACACCTTGCCCAGGGCGTAAAGTATCAAc                                                      >  1:227206/1‑100 (MQ=255)                                      cAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAAcc                                                     <  1:197089/100‑1 (MQ=255)                                      cAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAAcc                                                     <  1:218193/100‑1 (MQ=255)                                         cATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGt                                                  >  1:99541/1‑100 (MQ=255)                                           tGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTg                                                <  2:63477/100‑1 (MQ=255)                                             ctctctCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGAc                                              <  1:657781/100‑1 (MQ=255)                                               ctctcCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCa                                            >  1:749888/1‑100 (MQ=255)                                                tctcCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCAc                                           <  1:467613/100‑1 (MQ=255)                                                tctcCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGACAGCCCTACACCTTGACCAGGGCGGAAAGTATCAACCCGTTGACCAc                                           >  2:879671/1‑100 (MQ=255)                                                      gCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGa                                     <  1:571699/100‑1 (MQ=255)                                                          cgaTTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGaaaa                                  >  2:1133472/1‑99 (MQ=255)                                                          cgaTTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAAt                                 >  1:336115/1‑100 (MQ=255)                                                              tttACCCTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGAcc                             <  2:460146/100‑1 (MQ=255)                                                                  cccTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCtctc                         >  1:234317/1‑100 (MQ=255)                                                                    cTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCgc                       >  1:928699/1‑100 (MQ=255)                                                                    cTCATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCgc                       <  2:714331/100‑1 (MQ=255)                                                                      cATATTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCgctt                     >  2:147534/1‑100 (MQ=255)                                                                         atTGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCgcttgct                  >  2:475351/1‑100 (MQ=255)                                                                          ttGCTCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCgcttgctt                 <  2:1116331/100‑1 (MQ=255)                                                                              tCGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCGCTTGCTTAATg             <  2:559812/100‑1 (MQ=255)                                                                               nggTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCGCTTGCTTAATgg            >  1:203007/2‑100 (MQ=255)                                                                               cGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCGCTTGCTTAATgg            <  1:788907/100‑1 (MQ=255)                                                                               cGGTGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCGCTTGCTTAATgg            >  1:1016742/1‑100 (MQ=255)                                                                                  tGATTTCGCGGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCGCTTGCTTAATGGAAt         <  1:1202584/100‑1 (MQ=255)                                                                                         gcgGGCTGCCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCGCTTGCTTAATGGAATACCgggg  <  1:1304477/100‑1 (MQ=255)                                                                                                |                                                                                             GCTGGCGACCAAAAATCACCTCCATCCGCGCACCGCCCAGCATGCTCTCTCCGGCGACGATTTTACCCTCATATTGCTCGGTGATTTCGCGGGCTACCGCCAGCCCTACACCTTGCCCAGGGCGTAAAGTATCAACCCGTTGACCACGGTCGAAAATGACCTCTCGCTTGCTTAATGGAATACCGGGG  >  NC_000913/1188339‑1188526

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑