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%	65.6 / NA	21	T156T (ACT→ACC)	phoP	DNA‑binding transcriptional dual regulator PhoP
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (11/10);  total (11/10)

GAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCC‑ATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCT  >  NC_000913/1189742‑1190194                                                                                                                                                                                                                                               |                                                                                                                                                                                                                        gagaGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCgtac                                                                                                                                                                                                             >  2:292928/1‑248 (MQ=255)              aaaGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGAGGAAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGATCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTg                                                                                                                                                                                                 >  1:152967/1‑250 (MQ=255)                            ttgttCATCAGCGCAATTCGCACAGATAGCCCTGGCCGCGAACGGTGTTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGGCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATCGGGATGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTCTTGCGTATCAACATTTCCATAATGGTGTATTCGACCTCAGTCAGTGTGTTCACTTCGTCAtt                                                                                                                                                                                   >  2:187056/4‑250 (MQ=255)                                 cataaGCGCAATTCGAACAGATAGCACTGGCCGCGAACGGTGTTAATAACTTCTTGGGGCTATTGTGACTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGAATGGCTTTCCAGAAGCTCCGAATACGGATAGAGTTGGAGCATTAACGAATATTTGCTGACCACTTTGCCATTCTTGCGTATCAACGTTTCCATATTGGTGTATTCGAACGCGGTCAGTTTGTTCACTTCGTCATTact                                                                                                                                                                                >  2:168149/5‑246 (MQ=255)                                      gcgcAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGATCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAAtt                                                                                                                                                                        <  1:166633/251‑1 (MQ=255)                                                   agacaGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCa                                                                                                                                                                                             <  1:312898/213‑1 (MQ=255)                                                   agacaGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCACATCAGTACATAAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGTTAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCa                                                                                                                                                                                             >  2:312898/5‑217 (MQ=255)                                                          ccTGGCCGCGAACGGTGGTAATCACTTCTTGGGGCTATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAAcc                                                                                                                                                    >  2:173485/1‑251 (MQ=255)                                                                                  cgtcttGGGGATATTTTGCCTGAATTTATTTGCGCAGACGTCCCATCAGTCCATCAATGGTAGGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTGTGCTGACCTCTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGTAGTGAAATgtcc                                                                                                                            <  2:240512/249‑4 (MQ=255)                                                                                                       gAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTCGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAATCCAGACCGCTAtt                                                                                                        <  1:255481/250‑1 (MQ=255)                                                                                                         aTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTAGTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAcg                                                                                                     <  1:269603/251‑1 (MQ=255)                                                                                                              cttGCGCAGACGTCCCATCAGAACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATCGGGTTGGAGCCTTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATACTTCACGGCGAGAGAGATCAACCTGAACCGGGGGGAGCGCAATGACCTGTGAAGCCAGACCGCTATTAcgcagcc                                                                                                >  2:340826/2‑247 (MQ=255)                                                                                                                                cAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTCCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATATACCTGAAACGGGGGGAGCGAAATTACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATCCCTGCATTcgcg                                                                              >  1:214565/1‑251 (MQ=255)                                                                                                                                                  gCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCC‑ATCACCTCTTCAatat                                                           <  1:173485/251‑1 (MQ=255)                                                                                                                                                     ttCCCGCAGCTCCGCAGCCGGATAGAGTTGGAGCACTAACGAATCTTGGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGAGAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAATCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCC‑ATCACCTCTTCAATATg                                                          <  1:41398/249‑1 (MQ=255)                                                                                                                                                         cGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCCCTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGCGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCC‑ATCACCTCTTCAATATGAAACgg                                                    >  1:233894/1‑251 (MQ=255)                                                                                                                                                         cGCAGCTACGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGCCCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGCGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTCTAACGCCGCATTAATGCCTGCATTCGCGCCCACCAC‑TATTCAATATGAAACgg                                                    >  2:148561/1‑251 (MQ=255)                                                                                                                                                                            agagTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCC‑ATCACCTCTTCAATATGAAACGGTTTAGTCACATAatcatc                                  <  1:87082/250‑1 (MQ=255)                                                                                                                                                                                          aaCGAATCTTTGCGGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATTACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCC‑ATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTa                    <  1:65151/250‑1 (MQ=255)                                                                                                                                                                                                 cTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAACCGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCC‑ATCACCTCTTCAATATGAAACGGTTTAGTCACGTAATCATCAGCACCGGCACTTAATACTTCg            >  2:91621/1‑251 (MQ=255)                                                                                                                                                                                                           cactttttcATTAGTGCGTATCATCTTTTACCTAAGGGTGTATTCGAACGCGGTCAGTTTGATCATGTCGTCATTAATAGTTAAGTCACTGCGAGAGAGATCAACCTGAAACGTGGGGAGCGAAATGACCTGTGAAGCCAGTCCGCTATTACGCCGCATTAATGCCTGCATTCGCGCC‑ATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGAACTTAATACTTCGACTCTGTCCt  <  1:193120/243‑1 (MQ=255)                                                                                                                                                                                                                                               |                                                                                                                                                                                                                        GAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCC‑ATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCT  >  NC_000913/1189742‑1190194

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑