Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,995,368	T→G	pseudogene (653/707 nt)	ygeN ←	putative type III secretion system protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,995,368	0	T	G	100.0%	20.8 / NA	7	pseudogene (653/707 nt)	ygeN	putative type III secretion system protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (5/2);  total (5/2)

ATCATTAAACTTGAGCCAGGGAGCTATAAGTCCTCAGGGCTTGCCAAAACAGAATTATTCATATCCAAAGAATGTGTTTCAAACATTTTTTCAACTAAATAATGTCTGGCTTGTTCGCAGATTTCGTTAACCTTGTCAGGGGAGAAA  >  NC_000913/2995291‑2995437                                                                              |                                                                      aTCATTAAACTTGAGCCAGGGAGCTATAAGTCCTCAGGGCTTGCCAAAACAGAATTATTCATATCCAAAGAATGTGTGTc                                                                     >  1:505602/1‑80 (MQ=255)    aTTAAACTTGAGCCAGGGAGCTATAAGTCCTCAGGGCTTGCCAAAACAGAATTATTCATATCCAAGGAATGTGTGTCaaa                                                                  <  1:505590/80‑1 (MQ=255)         aCTTGAGCCAGGGAGCTATAAGTCCTCAGGGCTTGCCAAAACAGAATTATTCATATCCAAAGAATGTGTGTCAAACAtttt                                                            >  1:505601/1‑81 (MQ=255)              aGCCAGGGAGCTATAAGTCCTCAGGGCTTGCCAAAACAGAATTATTCATATCCAAAGAATGTGTGTCAAACATTTTTTCaa                                                       >  2:505603/1‑81 (MQ=255)                                 cTCAGGGCTTGCCAAAACAGAATTATTCATATCCAAAGAATGTGTGTCAAACATTTTTTCAACTAAATAATGTCTGGCtt                                     <  1:505591/80‑1 (MQ=255)                                              aaaaCAGAATTATTCATATCCAAAGAATGTGTGTCAAACATTTTTTCAACTAAATAATGTCTGGCTTGTTCGCAGATTTCg                       >  2:505607/1‑81 (MQ=255)                                                                   aaaGAATGTGTGTCAAACATTTTTTCAACTAAATAATGTCTGGCTTGTTCGCAGATTTCGTTAACCTTGTCAGGGGAGaaa  >  1:505611/1‑81 (MQ=255)                                                                              |                                                                      ATCATTAAACTTGAGCCAGGGAGCTATAAGTCCTCAGGGCTTGCCAAAACAGAATTATTCATATCCAAAGAATGTGTTTCAAACATTTTTTCAACTAAATAATGTCTGGCTTGTTCGCAGATTTCGTTAACCTTGTCAGGGGAGAAA  >  NC_000913/2995291‑2995437

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑