Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,849,229	C→T	S303N (AGC→AAC)	uhpB ←	sensory histidine kinase in two‑component regulatory sytem with UhpA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,849,229	0	C	T	100.0%	63.2 / NA	20	S303N (AGC→AAC)	uhpB	sensory histidine kinase in two‑component regulatory sytem with UhpA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (12/8);  total (12/8)

TGCCCGCTCTGCTTCACGCTGGCGTTATCTGCCGCCAGCCGCTGAACAATGCCCGCCTGAGTACGAATAGCAGTGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGCTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCACGCAACCGCTGGATGCCAGCGCCAAGCAACAACCCTGTCAGACTTTGCACCAGCAGC  >  NC_000913/3849103‑3849363                                                                                                                               |                                                                                                                                       tGCCCGCTCTGCTTCACGCTGGCGTTATCTGCCGCCAGCCGCTGAACAATGCCCGCCTGAGTACGAATAGCAGTGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGttt                                                                                                                            >  1:171258/1‑139 (MQ=255)                                ccgccAGCCGCTGAACAATGCCCGCCTGAGTACGAATAGCAGTGATGGTCTGACCGATATCATCATGCAGCTCACGGGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTgcg                                                                                             >  1:416914/1‑139 (MQ=255)                                ccgccAGCCGCTGAACAATGCCCGCCTGAGTACGAATAGCAGTGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGc                                                                                                            >  2:518888/1‑124 (MQ=255)                                ccgccAGCCGCTGAACAATGCCCGCCTGAGTACGAATAGCAGTGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGc                                                                                                            <  1:518888/124‑1 (MQ=255)                                                                      gCAGTGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCaa                                                                                                                     <  1:331485/77‑1 (MQ=255)                                                                      gCAGTGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCaa                                                                                                                     >  2:331485/1‑77 (MQ=255)                                                                      gCAGTGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGTGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCACGCa                                                       <  2:479037/139‑1 (MQ=255)                                                                       cAGTGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCACGCaa                                                      >  2:560010/1‑139 (MQ=255)                                                                          tGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGtt                                                                                                                >  1:158354/1‑78 (MQ=255)                                                                          tGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGtt                                                                                                                <  2:158354/78‑1 (MQ=255)                                                                            aTGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAg                                                                                                         >  2:108840/1‑83 (MQ=255)                                                                            aTGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAg                                                                                                         <  1:108840/83‑1 (MQ=255)                                                                             tGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGGAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCACGCAACCGCTg                                                <  2:416914/139‑1 (MQ=255)                                                                                                   cAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCa                                                           <  2:344021/106‑1 (MQ=255)                                                                                                   cAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCa                                                           >  1:344021/1‑106 (MQ=255)                                                                                                   cAGCTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCACGCAACCGCTGGATGCCAGCGCCAAGCaacaac                          >  2:385407/1‑139 (MQ=255)                                                                                                      cTCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCACGCAACCGCTGGATGCCAGCGCCAAGCAACAACCCt                       >  2:468490/1‑139 (MQ=255)                                                                                                       tCACGCGCCACATCACGGCGCACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCACGCAACCGCTGGATGCCAGCGCCAAGCAACAACCCTg                      >  2:525719/1‑139 (MQ=255)                                                                                                                           cACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCACGCAACCGCTGGATGCCAGCGCCAAGTAACAACCCTGTCAGACTTTGCACCagcagc  >  2:297685/1‑139 (MQ=255)                                                                                                                           cACGTTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCACGCAACCGCTGGATGCCAGCGCCAAGCAACAACCCTGTCAGACTTTGCACCagcagc  <  1:560010/139‑1 (MQ=255)                                                                                                                               |                                                                                                                                       TGCCCGCTCTGCTTCACGCTGGCGTTATCTGCCGCCAGCCGCTGAACAATGCCCGCCTGAGTACGAATAGCAGTGATGGTCTGACCGATATCATCATGCAGCTCACGCGCCACATCACGGCGCACGCTCTCTTCGGTTTCCAGCAACCGTTCAGCCAGATGCTGATTGCGCGCCAGTTCCTTTTGCAGCGACTGGTTAAGTTCACGCAACCGCTGGATGCCAGCGCCAAGCAACAACCCTGTCAGACTTTGCACCAGCAGC  >  NC_000913/3849103‑3849363

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑