Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,189,980	A→G	T156T (ACT→ACC)	phoP ←	DNA‑binding transcriptional dual regulator PhoP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,189,980	0	A	G	100.0%	105.6 / NA	28	T156T (ACT→ACC)	phoP	DNA‑binding transcriptional dual regulator PhoP
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (21/7);  total (21/7)

GGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATAC  >  NC_000913/1189749‑1190219                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                ggAAAAAAAGAAGCAGTAATTTTTTCATCAGCGCAATTCGAACAGCAAGCCCTGGCCGAGAACGGTGGTAATCACTTCTTGGGGATCTTGTGCATGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGAAAGAGTTGGAGCATTACCGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTc                                                                                                                                                                                                                               >  1:214055/1‑250 (MQ=255)      aaaaGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGAAATCACTTATTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGGACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGATGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTg                                                                                                                                                                                                                         >  1:450954/1‑251 (MQ=255)           aCGCAGTAATTTATTCATCAGCGCAATTAGAACAGATAGACCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTACCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGACTCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGAATTCGAACGCGGTAAGTTTGATCAc                                                                                                                                                                                                                    >  2:44878/1‑251 (MQ=255)            cGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGCTATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACt                                                                                                                                                                                                                   >  1:250840/1‑251 (MQ=255)              cAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTc                                                                                                                                                                                                                 >  1:145656/1‑251 (MQ=255)                       tttCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACAGCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATGCGAACGCGGTCAGTTTGATCACTTCGTCATTaa                                                                                                                                                                                                         <  2:237456/250‑1 (MQ=255)                           atcaGCGCAATTCGAACAGATAGCCCTGGCCGCGAAAGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGTCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGCATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGTTCCCTTCGTCATTact                                                                                                                                                                                                        >  2:405021/1‑245 (MQ=255)                                          aCAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCgag                                                                                                                                                                                       >  1:289935/1‑249 (MQ=255)                                                                 gtgggAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGCGAGAGATCAACCTGAAACgggggg                                                                                                                                                                >  2:313170/1‑249 (MQ=255)                                                                    gtAATCCCTTCTTGGGGATATTGAGCCTGAATTTTTTTCCGCAGACGTCCCATCAGTACATCAATGGTATAGCTTTCCCGCAGCTCCGCATCCGGATAGTGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATGGCGTATCAACGTTTCCCTAATGGTGTATTCGAAAGCGGTCAGTTTGATCACTTCGTCATTATTAGATAATTCAAGGAGAGAGAGATCAACCTGAAACGTGGCGAGCg                                                                                                                                                            >  2:147824/1‑250 (MQ=255)                                                                                        ttGTGCCTGCATTTTTTTGCGCAGACGTCCCATCAGTACATCAGTGGTATGGCTTTCCCTCAGCTACGCATCCGGATAGAGTTGGAGCATTCACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTAGAACGCGGTCAGTTTGATCACTTCGTCATTACTAGATAATTCACGGCGAGAGAGATAAACATGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGAc                                                                                                                                       >  2:30872/1‑251 (MQ=255)                                                                                                  aTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATTACCTGTGAAGCCAGACCGCTATTAcg                                                                                                                             >  2:404377/1‑251 (MQ=255)                                                                                                   tttttttGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcgc                                                                                                                            >  1:238260/1‑251 (MQ=255)                                                                                                     tttttGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcgccg                                                                                                                          >  1:129552/1‑251 (MQ=255)                                                                                                      ttttGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcgccg                                                                                                                          <  1:402457/250‑1 (MQ=255)                                                                                                           cgcAGACGTCCCATCAGTACATCAAGGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTGTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTGCGGCATTAATAGATAATTCACGGCGATAGAGATCAACCTGAAACGGTGGGAGCGAAATGTCCTGTGAAGCCAGACCGCTATTACGCCTCATTaa                                                                                                                    <  2:463739/251‑1 (MQ=255)                                                                                                            gcAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGTAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAAt                                                                                                                   <  1:303154/251‑1 (MQ=255)                                                                                                            gcAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCTCTATTACGCCGCATTAAt                                                                                                                   <  1:132299/251‑1 (MQ=255)                                                                                                             ccgACGTCCCATAAGTACCTAAATGGTATGGCTTTCCCTAAGCGCAGCATCCGGATAGATTTGGAGCATTAACGACTCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTAGGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCATCCTGAAACGGGGGGAGCGAAATGACCGGTGAAGACGGACCGCAATTACGCCGCATTAATg                                                                                                                  >  2:41310/3‑251 (MQ=255)                                                                                                                    cccATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTGTGCCATGATTGCGTATCAACGTTTCCATAATGGTGTAGTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAGATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCAt                                                                                                           <  1:315704/251‑1 (MQ=255)                                                                                                                                                            cATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTcac                                                                    >  1:392657/1‑250 (MQ=255)                                                                                                                                                             atccggaaaaagttagacgaTTACCGAATCCTTGATGACCACTATGCCATTATTGCGGATCAACGTTACCATACTGGTATATCCGAACGCGGTCAGTTTGATCACTTCGTCATCAATCGCTAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAACTGACCTGTGAAGCACGACCCCTATTACGCCGCATTCATGCCTGCATTCGCACCATCACCTCTTCAATCTGAAACGGCTTAGTCACAt                                                                  >  2:208920/20‑251 (MQ=255)                                                                                                                                                                                      gAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCTTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCACCACCGGCACTTAATAc                                         >  2:189543/1‑251 (MQ=255)                                                                                                                                                                                        aTCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACtt                                       >  1:56136/1‑251 (MQ=255)                                                                                                                                                                                                      cTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGc                         >  1:89025/1‑251 (MQ=255)                                                                                                                                                                                                              ttattaagtatcaaagtaaccctaatgGTGGATTCGAACGCGGTCAGTTTGATAACTTCCTCATTAATAGATAATTCACGGCGAGAGAGATAAACCTGAAACGGGGGGAGCGAAATGCCCTGTGAAGCCAGACCGCTATTACGCCGAATTAATGCCTGCATTCGCGACATCACCTCTTCAATCTGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATCCTTCGACTTTGTCCTGCAAGATTTc                 >  2:343529/23‑251 (MQ=255)                                                                                                                                                                                                               tattGCGTATCAACGTTTCCATACTGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTcc                >  2:50111/1‑250 (MQ=255)                                                                                                                                                                                                                attGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCTCCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCa                <  1:404377/250‑1 (MQ=255)                                                                                                                                                                                                                             gTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATAc  >  1:323189/1‑251 (MQ=255)                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                GGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATAC  >  NC_000913/1189749‑1190219

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑