Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,484,314	C→T	I421I (ATC→ATT)	unknown →	Type II/IV secretion system ATP hydrolase TadA/VirB11/CpaF, TadA subfamily

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,484,314	0	C	T	100.0%	25.7 / NA	11	I421I (ATC→ATT)	unknown	Type II/IV secretion system ATP hydrolase TadA/VirB11/CpaF, TadA subfamily
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (7/4);  total (7/4)

GGTCAAATCGTTTTACAGGATATATTTTCCTATAAGGCAAGTAAATATCGTGATAAAGAGGGTAAAATTCTTGGTGAGTTTATTAATCACGGACTACTAACTCGTTCTGTTGTATTCCAAAATGCTCAAGTATTCAATCTGAGTGCTGAACTACAAAGTATCTTCGGAGAAGCTGAGTAATGAATTATTATTTGTATTATGCCGTCCTAACAATAGGTGGGCTGTTATTTATATATACCTTAAGTAGTTGGTTTTCCACTAAAAGAAAAATTAATGAGTATGATACCTCTGTAAGTAGAACAACAAGTTTTTTTAAGAGCCTCAAATCAAAAATTAGTTTATGGTATTATCACTTTACTAAAGGTGATAAAAGAAACTTGATTCGCAATATTG  >  1/1484153‑1484545                                                                                                                                                                  |                                                                                                                                                                                                                                        gggcAAATTGTTTTACAAGATATTTTTTCTTATAAGGCAAGTAAGTACCGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTgg                                                                                                                                                >  1:322659/4‑251 (MQ=255)                                  aaGGCAAGTAAGTACCGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGAt                                                                                                               <  1:604769/251‑1 (MQ=255)                                   aGGCAAGTAAGTACCGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTTGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGATa                                                                                                              >  1:699117/1‑251 (MQ=255)                                     gCAAGTAAGTACCGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGATAc                                                                                                             >  1:818760/1‑250 (MQ=255)                                        agtaagtaCCGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATg                                                                                                                       >  1:549885/1‑237 (MQ=255)                                                 cGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGAt                                                                                                               >  1:794038/1‑236 (MQ=255)                                                      tAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGATACCTCTATAAGTAGgacaac                                                                                           <  1:538473/251‑1 (MQ=255)                                                                                                             gctgtttttcAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGATAc                                                                                                             <  1:441381/169‑1 (MQ=255)                                                                                                                                          tCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGATACCTCTATAAGTAggac                                                                                              >  1:274068/1‑161 (MQ=255)                                                                                                                                             gagtactgagttACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGATACCTCTATAAGTAGGACAACAAGTTTTTTTAAGAACCTCAAATCAAAAGTTAGTTTATGGTATTATCACTTTACTAAAGGTGATAAAAAAAACTTAGTTCGTAatat    >  1:68201/12‑251 (MQ=255)                                                                                                                                                tactgagttACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGATACCTCTATAAGTAGGACAACAAGTTTTTTTAAGAACCTCAAATCAAAAGTTAGTTTATGGTATTATCACTTTACTAAAGGTGATAAAAAAAACTTAGTTCGTAATATTg  <  1:84604/242‑1 (MQ=255)                                                                                                                                                                  |                                                                                                                                                                                                                                        GGTCAAATCGTTTTACAGGATATATTTTCCTATAAGGCAAGTAAATATCGTGATAAAGAGGGTAAAATTCTTGGTGAGTTTATTAATCACGGACTACTAACTCGTTCTGTTGTATTCCAAAATGCTCAAGTATTCAATCTGAGTGCTGAACTACAAAGTATCTTCGGAGAAGCTGAGTAATGAATTATTATTTGTATTATGCCGTCCTAACAATAGGTGGGCTGTTATTTATATATACCTTAAGTAGTTGGTTTTCCACTAAAAGAAAAATTAATGAGTATGATACCTCTGTAAGTAGAACAACAAGTTTTTTTAAGAGCCTCAAATCAAAAATTAGTTTATGGTATTATCACTTTACTAAAGGTGATAAAAGAAACTTGATTCGCAATATTG  >  1/1484153‑1484545

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑