Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	2,027,561	G→C	T129S (ACC→AGC)	vraS ←	sensor histidine kinase VraS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,027,561	0	G	C	100.0%	165.1 / NA	44	T129S (ACC→AGC)	vraS	sensor histidine kinase VraS
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (25/19);  total (25/19)

TTCGTTTCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGA  >  CP000730/2027417‑2027694                                                                                                                                                 |                                                                                                                                      ttCGTTTCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTa                                                                                                                                    >  1:39683/1‑148 (MQ=255) ttCGTTTCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTa                                                                                                                                    >  1:76493/1‑148 (MQ=255)     tttCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGtt                                                                                                                                <  2:313283/148‑1 (MQ=255)       tCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGtttt                                                                                                                              >  1:195314/1‑148 (MQ=255)       tCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGtttt                                                                                                                              >  2:198025/1‑148 (MQ=255)       tCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGtttt                                                                                                                              >  2:246280/1‑148 (MQ=255)       tCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTCCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGtttt                                                                                                                              >  2:250784/1‑148 (MQ=255)            gatagcagatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGtt                                                                                                                         <  2:309398/148‑1 (MQ=255)            gatagcagatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGtt                                                                                                                         <  2:339149/148‑1 (MQ=255)                 cagatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAg                                                                                                                    >  1:222430/1‑148 (MQ=255)                  agatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGt                                                                                                                   >  2:301693/1‑148 (MQ=255)                  agatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGt                                                                                                                   >  2:337538/1‑148 (MQ=255)                  agatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGt                                                                                                                   >  2:4211/1‑148 (MQ=255)                                  gCCGCAAAAAGTTGCTGACTATCAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAAtt                                                                                                   >  1:40594/1‑148 (MQ=255)                                               gCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAgg                                                                                      <  2:257517/148‑1 (MQ=255)                                               gCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAgg                                                                                      <  2:122654/148‑1 (MQ=255)                                                    cTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACaa                                                                                 >  2:39497/1‑148 (MQ=255)                                                      aaCAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAgt                                                                               <  2:348499/148‑1 (MQ=255)                                                      aaCAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAgt                                                                               <  1:38442/148‑1 (MQ=255)                                                          gAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTAt                                                                           <  1:176910/148‑1 (MQ=255)                                                          gAATCGTAAAGTTCTCGTGCTAGTCTTTGACGTTCATATTCAATAATCTTTTTAACTTTCACATCATTTATATTATGATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTAt                                                                           <  2:347672/148‑1 (MQ=255)                                                             tCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGt                                                                        >  1:247560/1‑148 (MQ=255)                                                                  aaGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATaaa                                                                   >  2:2440/1‑148 (MQ=255)                                                                  aaGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATaaa                                                                   >  2:295485/1‑148 (MQ=255)                                                                          gTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGt                                                           <  2:39683/148‑1 (MQ=255)                                                                          gTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGt                                                           <  2:76493/148‑1 (MQ=255)                                                                          gTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGt                                                           <  2:92016/148‑1 (MQ=255)                                                                             cTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGttta                                                        >  1:245218/1‑147 (MQ=255)                                                                             cTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTc                                                        >  2:377026/1‑148 (MQ=255)                                                                              tAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCa                                                       <  1:331121/148‑1 (MQ=255)                                                                                  cTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtat                                                   >  1:80409/1‑148 (MQ=255)                                                                                  cTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtat                                                   >  1:148884/1‑148 (MQ=255)                                                                                     tGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtatata                                                >  1:148135/1‑148 (MQ=255)                                                                                     tGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtatata                                                >  1:232722/1‑148 (MQ=255)                                                                                     tGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtatata                                                >  1:261076/1‑148 (MQ=255)                                                                                     tGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACtatata                                                >  2:355293/1‑148 (MQ=255)                                                                                               cTTCAATAATCTTTTTATCTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATAtt                                      <  2:359074/148‑1 (MQ=255)                                                                                                  cAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTg                                   >  2:311213/1‑148 (MQ=255)                                                                                                      aatCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCa                               <  1:301693/148‑1 (MQ=255)                                                                                                      aatCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCa                               <  1:4211/148‑1 (MQ=255)                                                                                                      aatCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATACTTCTATATTTTGATCa                               <  1:337538/148‑1 (MQ=255)                                                                                                         cTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTa                            >  1:222038/1‑148 (MQ=255)                                                                                                                            ttAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCtt         <  2:210887/148‑1 (MQ=255)                                                                                                                                   tataATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGa  <  1:295485/148‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                      TTCGTTTCTTTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGA  >  CP000730/2027417‑2027694

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑