Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,823,162	C→T	H255Y (CAC→TAC)	spoT →	bifunctional (p)ppGpp synthase/hydrolase SpoT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,823,162	0	C	T	100.0%	27.5 / NA	10	H255Y (CAC→TAC)	spoT	bifunctional (p)ppGpp synthase/hydrolase SpoT
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (6/4);  total (6/4)

GGTGAAAGCCGCGCGCGGCAACCGTAAAGAGATGATCCAGAAGATTCTTTCTGAAATCGAAGGGCGTTTGCAGGAAGCGGGAATACCGTGCCGCGTCAGTGGTCGCGAGAAGCATCTTTATTCGATTTACTGCAAAATGGTGCTCAAAGAGCAGCGTTTTCACTCGATCATGGACATCTACGCTTTCCGCGTGATCGTCAATGATTCTGACACCTGTTATCGCGTGCTGGGCCAGATGCACAGCCTGTACAAGCCGCGTCCGGGCCGCGTGAAAGACTATATCGCCATTCCAAAAGCGAACGGCTATCAGTCTTTGCACACCTCGATG  >  NC_000913/3823002‑3823329                                                                                                                                                                 |                                                                                                                                                                        ggtgAAAGCCGCGCGCGGCAACCGTAAAGAGATGATCCAGAAGATTCTTTCTGAAATCGAAGGGCGTTTGCAGGAAGCGGGAATACCGTGCCGCGTCAGTGGTCGCGAGAAGCATCTTTATTCGATTTACTGCAAAATGGTGCTCAAAGAGCAGCGTTTTTACTCGATCATGGACATCTACGCTTTCCGCGTGATCGTCAATGATTCTGACACCTGTTATCGCGTGCTGGGCCAGATGCACAGc                                                                                      >  1:345344/1‑244 (MQ=255)  gtgAAAGCCGCGCGCGGCAACCGTAAAGAGATGATCCAGAAGATTCTTTCTGAAATCGACGGGCGTTTGCAGGAAGCGGGAATACCGTGCCGCGTCAGAGGTCGCGAGAAGCATCTTTATTCGATTTCCTGCAAAATGGTGCTCAAAGAGCAGCGTTTTTACTCGATCATGGACATCTACGCTTTCCGCGTGATCGTCAATGATTCTGACACCTGTTATCGCGTGCTGGGCCAGATGCACAGCCTGTACa                                                                               >  1:358093/1‑250 (MQ=255)           gcgcgnnGCNNNCGNNAAGAGATGATCCATAAGATTCTTNCTGAAATCGAAGGGAGTTTGCAGGAAGCGNGNANACCGNNCCGNGTCAGTGGTCNCGCGAAGCATCTTTATTCGATTTACTGCAAAATGGTGCTCAAAGAGCANCNTTTTTACTCGATCATGGACATCTACGCTTTCNGCGTGATCGTCAATGATTCTGACANCTGTNNTcncn                                                                                                          >  2:369844/1‑213 (MQ=255)             gcgcgGCAACCGTAAAGAGATGATCCAGAAGATTCTTTCTGAAATCGAAGGGCGTTTGCAGGAAGCGGGAATACCGTGCCGCGTCAGTGGTCGCGAGAAGCATCTTTATTCGATTTACTGCAAAATGGTGCTCAAAGAGCAGCGTTTTTACTCGATCATGGACATCTACGCTTTCCGCGTGATCGTCAATGATTCTGACACCTGTTATCGCGTGCTGGGCCAGATGCACAGCCTGTACAAGCCGCGTCCgg                                                                   >  1:295726/1‑251 (MQ=255)                cgGCAACCGTAAAGAGATGATCCAGAAGATTCTTTCTGAAATCGAAGGGCGTTTGCAGGAAGCGGGAATACCGTGCCGCGTCAGTGGTCGCGAGAAGCATCTTTATTCGATTTACTGCAAAATGGTGCTCAAAGAGCAGCGTTTTTACTCGATCATGGACATCTACGCTTTCCGCGTGATCGTCAATGATTCTGACACCTGTTATCGCGTGCTGGGCCAGATGCACAGCCTGTACAAGCCGCGTCCGGGcc                                                                >  1:181772/1‑251 (MQ=255)                           aaGAGATGATCCATAAGATGCATTGTGAAATCGAAGGGCGTTTGCAGAAAGCGGGAATACCGTGCCGCGTCAGTGGTCGCGAGAAGCAGCTTTATTCGATTGACTCCAAAAGGGTGCTCAAAGAGCAGCTTTTTTATTCGACCATTGACATCGACGGTTTCCTCGTGATTGTCAATGATTGTGGCGCTTGTGTGCGCGTGCCGGGCCAGGTGCACAGGCTGTACATGCCGCGTCCGGGCCGCGTGAAAGAc                                                     <  1:369844/251‑1 (MQ=255)                                                                            aGCGGGAATACCGTGCCGCGTCAGTGGTCGCGAGAAGCATCTTTATTCGATTTACTGCAAAATGGGGCTCAAAGAGCAGCGTTTTTACTCGATCATGGACATCTACGCTTTCCGCGTGATCGTCAATGATTCTGACGCCTGTTATCGCGTGCTGGGCCAGATGCACAGCCTGTACAAGCCGCGTCCgg                                                                   <  1:79885/188‑1 (MQ=255)                                                                                                      gTCGCGAGAAGCATCTTTATTCGATTTACTGCAAAATGGTGCTCAAAGAGCAGCGTTTTTACTCGATCATGGACATCTACGCTTTCCGCGTGATCGTCAATGATTCTGACACCTGTTATCGCGTGCTGGGCCAGATGCACAGCCTGTACAAGCCGCGTCCGGGCCGCGTGAAAGACTATATCGCCATTCCAAAAGCGAACGGCTATCAGTCTTTGCACACCTCgatg  <  1:84498/227‑1 (MQ=255)                                                                                                      gTCGCGAGAAGAATCTTTATTCGATTTACTGCAAAATGGTGCTCAAAGAGCAGCGTTTTTACTCGATCATGGACATCTACGCTTTCCGCGTGATCGTCAATGATTCTGACACCTGTTATCGCGTGCTGGGCCAGATGCACAGCCTGTACAAGCCGCGTCCGGGCCGCGTGAAAg                                                       >  1:144674/1‑174 (MQ=255)                                                                                                                                                            gTTTTTACTCGATCATGGACATCTACGCTTTCCGCGTGATCGTCAATGATTCTGACACCTGTTATCGCGTGCTGGGCCAGATGCACATCCTTTACAAGCCGCGTCCGGGCCGCGTGAAAGACTATATCGCCATTCCAAAAGCGAACGGCTATc                      <  1:259296/153‑1 (MQ=255)                                                                                                                                                                 |                                                                                                                                                                        GGTGAAAGCCGCGCGCGGCAACCGTAAAGAGATGATCCAGAAGATTCTTTCTGAAATCGAAGGGCGTTTGCAGGAAGCGGGAATACCGTGCCGCGTCAGTGGTCGCGAGAAGCATCTTTATTCGATTTACTGCAAAATGGTGCTCAAAGAGCAGCGTTTTCACTCGATCATGGACATCTACGCTTTCCGCGTGATCGTCAATGATTCTGACACCTGTTATCGCGTGCTGGGCCAGATGCACAGCCTGTACAAGCCGCGTCCGGGCCGCGTGAAAGACTATATCGCCATTCCAAAAGCGAACGGCTATCAGTCTTTGCACACCTCGATG  >  NC_000913/3823002‑3823329

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: ‑