Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,647,030	C→T	intergenic (+293/+144)	flxA → / ← ydfW	Qin prophage; protein FlxA/Qin prophage; uncharacterized protein YdfW

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,647,030	0	C	T	100.0%	48.5 / NA	15	intergenic (+293/+144)	flxA/ydfW	Qin prophage; protein FlxA/Qin prophage; uncharacterized protein YdfW
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (7/8);  total (7/8)

TTATGAATTGCAACTATTTCTGTAGTCACTTTTGTGGGGACAGTCCACAAAACTGCCAACTTCCGCTTCTTGCTCTTAGCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTACGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCACCCGAAAATGAACACCAGAAACGCGACTTAAGAATCTACCCTATGAATGGATATGCACTCAA  >  NC_000913/1646912‑1647156                                                                                                                       |                                                                                                                               ttATGAATTGCAACTATTTCTGTAGTCACTTTTGTGGGGACAGTCCACAAAACTGCCAACTTCCGCTTCTTGCTCTTAGCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTc                                                                                                           >  1:568875/1‑140 (MQ=255)              cTATTTCTGTAGTCACTTTTGTGGGGACAGTCCACAAAACTGCCAACTTCCGCTTCTTGCTCTTAGCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTgg                                                                                              >  2:339615/1‑140 (MQ=255)                               tttGTGGGGACAGTCCACAAAACTGCCAACTTCCGCTTCTTGCTCTTAGCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAAc                                                                             <  2:271349/140‑1 (MQ=255)                               tttGTGGGGACAGTCCACAAAACTGCCAACTTCCGCTTCTTGCTCTTAGCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAAc                                                                             <  2:506189/140‑1 (MQ=255)                                        aCAGTCCACAAAACTGCCAACTTCCGCTTCTTGCTCTTAGCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACaa                                                                    >  2:470342/1‑140 (MQ=255)                                            tCCACAAAACTGCCAACTTCCGCTTCTTGCTCTTAGCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAacca                                                                >  1:554430/1‑140 (MQ=255)                                                             ttCCGCTTCTTGCTCTTAGCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCACCCGAAAATGAACACCa                                               >  1:668962/1‑140 (MQ=255)                                                                     cttGCTCTTAGCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCCCCCGAAAATGAACACCAGAAAcgcg                                       <  2:152615/140‑1 (MQ=255)                                                                               gCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCACCCGAAAATGAACACCAGAAACGCGACTTAAGAAt                             <  1:496066/140‑1 (MQ=255)                                                                                      ttAGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCACCCGAAAATGAACACCAGAAACGCGACTTAAGAATCTACCCt                      <  2:568875/140‑1 (MQ=255)                                                                                        aGCATAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCACCCGAAAATGAACACCAGAAACGCGACTTAAGAATCTACCCTAt                    <  1:470342/140‑1 (MQ=255)                                                                                           aTAGGCTATTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCGCCCGAAAATGAACACCAGAAACGCGACTTAAGAATCTACCCTATGaa                 <  2:402784/140‑1 (MQ=255)                                                                                                  aTTTACCATAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCACCCGAAAATGAACACCAGAAACGCGACTTAAGAATCTACCCTATGAATGGatat          >  2:506361/1‑140 (MQ=255)                                                                                                         aTAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCACCCGAAAATGAACACCAGAAACGCGACTTAAGAATCTACCCTATGAATGGATATGCACTCa   >  2:338548/1‑140 (MQ=255)                                                                                                          tAACGCCTCATTATGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCACCCGAAAATGAACACCAGAAACGCGACTTAAGAATCTACCCTATGAATGGATATGCACTCaa  <  2:554430/140‑1 (MQ=255)                                                                                                                       |                                                                                                                               TTATGAATTGCAACTATTTCTGTAGTCACTTTTGTGGGGACAGTCCACAAAACTGCCAACTTCCGCTTCTTGCTCTTAGCGGACATTAGCATAGGCTATTTACCATAACGCCTCATTACGCGCACCGCCCAGACTGACTCAGCGCGTTTCTGGCATATCCCCGGTAAAACAAGTAACAAACCACCCGAAAATGAACACCAGAAACGCGACTTAAGAATCTACCCTATGAATGGATATGCACTCAA  >  NC_000913/1646912‑1647156

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑