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%	118.0 / NA	32	T156T (ACT→ACC)	phoP	DNA‑binding transcriptional dual regulator PhoP
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (18/14);  total (18/14)

GCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACC  >  NC_000913/1189746‑1190220                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                 gCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACTGTGGGAATCACTTCTTGGGGATATTGTGCCTGAATTTTTGTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCTGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTAGTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCgg                                                                                                                                                                                                                                  <  2:38093/251‑1 (MQ=255) gCGGGAAAAAAAGACGCAGTAATTTTGTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTCCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAAGGGTGTATTCGAACGCgg                                                                                                                                                                                                                                  <  1:279815/251‑1 (MQ=255)        aaaaaGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCTAACGCGGTCAGttt                                                                                                                                                                                                                           <  1:385969/251‑1 (MQ=255)                          tttCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTaa                                                                                                                                                                                                          <  1:565393/250‑1 (MQ=255)                                     cAATTCGAACAGAGAGCCCTGGCTGCGATCGGTAGTAATCACTTCCTGGGGATATTGTGCCTGAACTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGGTCACTTCGTCCTTAATAGATAATTCAc                                                                                                                                                                                              <  2:240713/251‑1 (MQ=255)                                          cGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCgg                                                                                                                                                                                         >  1:193250/1‑250 (MQ=255)                                           gAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCg                                                                                                                                                                                          >  1:79508/1‑249 (MQ=255)                                                              cgAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACgg                                                                                                                                                                     >  1:214199/1‑251 (MQ=255)                                                                      tatAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCAATAATGGTGTATTCGTACGCGGTCAGTTTGTTCCCTTCGTCATTAATAGCTAATTCACGGCGAGAGAGATAAACCTGAAACGGGGGGAGCg                                                                                                                                                             >  2:500060/3‑251 (MQ=255)                                                                         aaTCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGaa                                                                                                                                                           >  1:343829/1‑250 (MQ=255)                                                                                             gtgCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAACTGACCTGTGAAGCCAGACCg                                                                                                                                      >  1:373074/1‑251 (MQ=255)                                                                                                ccTGAATTTTTTTGCGCAGACGTCCCAGCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTa                                                                                                                                   <  1:384193/251‑1 (MQ=255)                                                                                                    aaTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTAc                                                                                                                               <  1:209889/251‑1 (MQ=255)                                                                                                                  gACGTCCCATCAGTAAATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACGTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGGAGTCGAACGCGGTCAGTTTGATCTCTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAGCCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTAGTACGCCGCATTAATGcc                                                                                                                 <  2:79508/251‑1 (MQ=255)                                                                                                                                 cATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCGTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATc                                                                                                  <  2:214199/251‑1 (MQ=255)                                                                                                                                     aaTGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACct                                                                                              <  1:184901/251‑1 (MQ=255)                                                                                                                                                     cGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTcg                                                                                                         <  2:92909/224‑1 (MQ=255)                                                                                                                                                     cGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTcg                                                                                                         >  1:92909/1‑224 (MQ=255)                                                                                                                                                          cTCCGCATCAGACTAGAGTTGGAACATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAAGTTTCCATAATGGTGTATTAGAACGCGGTCAGTTAGATCACTTCGTCCTTAATAGATAATTCACGGCGAGAGAGATCATCCTGAAAAGGGGGGATCGATATGACCTGATAAGCCAGACAGCTCTGACGCCGAATTAATGCATGCATTCGCGCCAacacatcctccattagaaccgtaat                                                                           >  2:571405/1‑228 (MQ=255)                                                                                                                                                                        agagTTGGAGCATTAACTAATCTTTGCTGACCTCTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCTGTCAGGTTGATCACCTCGTCATTAATAGACAAGTCACGGCGAGAGAGAGCAACCTGAAACGGGGGGAGCGAAATGACCCGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGc                                                                                                              <  2:186866/200‑1 (MQ=255)                                                                                                                                                                        agagTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTCCTCCGCATTAATGCCTGc                                                                                                              >  1:186866/1‑200 (MQ=255)                                                                                                                                                                          agTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGc                                                         >  1:316285/1‑251 (MQ=255)                                                                                                                                                                                     tAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCAGTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACtt                                               <  1:396778/250‑1 (MQ=255)                                                                                                                                                                                           aTCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACtt                                        >  1:455706/1‑251 (MQ=255)                                                                                                                                                                                            tCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAACCGGTTTAGTCACATCATCATCAGCACCGGCCCTTaaaaattc                                       >  2:338339/1‑245 (MQ=255)                                                                                                                                                                                             cTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGCGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCg                                      >  1:140692/1‑251 (MQ=255)                                                                                                                                                                                                   tGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCgg                                                    >  1:474087/1‑231 (MQ=255)                                                                                                                                                                                                   tGACCACGTTGCCATTATTGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGGCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCCCCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCgg                                                    <  2:474087/231‑1 (MQ=255)                                                                                                                                                                                                                 ttattGCGTATCAACGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTc                  >  1:234540/1‑251 (MQ=255)                                                                                                                                                                                                                        gTATCAAAGTTTCCATAATGGAGTATTCGAACGCGGTCAGTTTGATCACTTCGTCAATAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGCGCGAAATGACCAGGGAAGCCAGAACGCTATTACGCCGCATTAATGCATGCATTCGCGACATAACCACTTCAATATGAAACGGTTTAGTCAGATAATCATCAGCACCGGCACTTAATAATTCGACTTTGTCCTGCCAGCTTTCACGGGCg           >  2:335635/1‑251 (MQ=255)                                                                                                                                                                                                                             aaCGTTTCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTa       >  1:376672/1‑250 (MQ=255)                                                                                                                                                                                                                                   tCCATAATGGTGTATTCGAACGCGGTCAGTTTGATCACTTAGTCATTAATAGATAATTCACGGCGAGAGAGATAAACCTGAACCGGGGGGAGCGAAGTGACCTGTGCAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGGGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTGCGACTTTGTCCTGCAAGCTTTCACGGGCGGTTAATAcc  >  1:339180/1‑249 (MQ=255)                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                 GCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACC  >  NC_000913/1189746‑1190220

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑