Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,652,004	A→G	pseudogene (714/746 nt)	yhiS →	putative uncharacterized protein YhiS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,652,004	0	A	G	100.0%	72.8 / NA	21	pseudogene (714/746 nt)	yhiS	putative uncharacterized protein YhiS
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (12/9);  total (12/9)

ATTGATTTCAATATGACAGGACAGAACCTGTCCGGGTTCGTTCTAACCTTGTCAAGGTTTTATTTCGAAGATCTACTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCA  >  NC_000913/3651930‑3652081                                                                           |                                                                              aTTGATTTCAATATGACAGGACAGAACCTGTCCGGGTTCGTTCTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTaa                                                                          <  2:699393/80‑1 (MQ=255)           atatGACAGGACAGAACCTGTCCGGGTTCGTTCTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCa                                                               >  1:699428/1‑81 (MQ=255)           atatGACAGGACAGAACCTGTCCGGGTTCGTTCTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCa                                                               <  2:699394/81‑1 (MQ=255)            tatGACAGGACAGAACCTGTCCGGGTTCGTTCTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCAc                                                              <  2:699395/81‑1 (MQ=255)             atGACAGGACAGAACCTGTCCGGGTTCGTTCTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACt                                                             >  2:699436/1‑81 (MQ=255)                         aaCCTGTCCGGGTTCGTTCTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAAtt                                                   >  2:699431/1‑79 (MQ=255)                                 cGGGTTCGTTCTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAgg                                          <  2:699396/80‑1 (MQ=255)                                    gttcgttcTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGc                                       >  2:699420/1‑80 (MQ=255)                                       cgttcTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGaa                                    >  2:699455/1‑80 (MQ=255)                                        gttcTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAAt                                   <  2:699397/80‑1 (MQ=255)                                        gttcTAACCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAAt                                   >  2:699430/1‑80 (MQ=255)                                              aCCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCggg                            <  2:699398/81‑1 (MQ=255)                                              aCCTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCg                              <  1:699399/79‑1 (MQ=255)                                                cTTGTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCgggg                           >  1:699435/1‑80 (MQ=255)                                                   gTCAAGGTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCGGGGAAAt                       >  2:699438/1‑81 (MQ=255)                                                         gTTTTATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCGGGGAAATtcttct                 <  1:699400/81‑1 (MQ=255)                                                            ttATTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCgg              >  2:699432/1‑81 (MQ=255)                                                              aTTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGc             <  2:699401/80‑1 (MQ=255)                                                              aTTTCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCt            >  2:699427/1‑81 (MQ=255)                                                                ttCGAAGATCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGa          >  2:699434/1‑81 (MQ=255)                                                                        tCTGCTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGtca  >  2:699443/1‑81 (MQ=255)                                                                           |                                                                              ATTGATTTCAATATGACAGGACAGAACCTGTCCGGGTTCGTTCTAACCTTGTCAAGGTTTTATTTCGAAGATCTACTTAATATAAATTTCACTGACGCAAATTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCA  >  NC_000913/3651930‑3652081

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: ‑