Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	111,560	T→C	18.6%	R210R (CGT→CGC)	USA300HOU_0110 →	possible staphylococcal tandem lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	111,560	0	T	C	18.6%	58.0 / 6.9	32	R210R (CGT→CGC)	USA300HOU_0110	possible staphylococcal tandem lipoprotein
Reads supporting (aligned to +/- strand):  ref base T (14/12);  new base C (3/3);  total (17/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.78e-01

AGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATTTACTTTAC  >  CP000730/111424‑111697                                                                                                                                         |                                                                                                                                          aGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATAATAAAGTTGGATATATATCATATAATCCAGATGTGCCGTGTTATTCGTCTTAATATCAATTAACTAATGATGATTATAATTGTAAACAATTAAGCaaaa                                                                                                                                       >  2:172315/1‑141 (MQ=17)          cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGata                                                                                                                              <  1:239978/141‑3 (MQ=255)           tttttttaGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCTGAGGTTCCGAGTTATTCAGCTTAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGAAAt                                                                                                                             >  2:249710/7‑141 (MQ=18)           ccAATACAGCAATTTTAAAGATTGAATGAATTATAAAGATGGAGATATAGCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACAt                                                                                                                             <  1:238420/140‑1 (MQ=255)            tattttttcAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGAtata                                                                                                                            >  2:35195/9‑141 (MQ=14)            gaagttaGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGAtata                                                                                                                            <  1:112888/136‑1 (MQ=14)            cAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATa                                                                                                                            >  1:48700/1‑141 (MQ=255)            cAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGATGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACACTTACGCAAAAGATATGAtata                                                                                                                            >  2:162939/1‑141 (MQ=17)                    cAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATAccgacgag                                                                                                                    <  1:272075/141‑7 (MQ=11)                      aTTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATa                                                                                                                  <  1:235006/141‑1 (MQ=255)                           aaaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGAGATACCAACtaataaggtg                                                                                                             >  1:170815/1‑137 (MQ=255)                           aaaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgcg                                                                                                             >  1:52846/1‑141 (MQ=255)                            aaGATTTAATGAATTATAAAGAAGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgagc                                                                                                            >  2:158638/1‑141 (MQ=255)                                tttAATGAAATATAAAGATAGAGATACATCATATAATCGTAAGCGGCTGATTTATACAGCTCCATATCAATTAACTAGTGATGATTATAATGTAAAACAATTACGTAAAATATATGACATCCCAACGAATATAGCGCCgca                                                                                                        <  2:31356/141‑3 (MQ=18)                                                gATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGt                                                                                        >  2:264193/1‑141 (MQ=255)                                                       atatatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGa                                                                                 >  2:86735/1‑141 (MQ=255)                                                                  aaTCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATCAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGt                                                                      <  2:215687/141‑1 (MQ=255)                                                                   aTCCAGAGGTGCCGAGTTATTCAGCGCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGtt                                                                     <  1:104066/141‑1 (MQ=255)                                                                    accAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtc                                                                    <  1:187061/140‑1 (MQ=255)                                                                     ccAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtca                                                                   >  1:219207/1‑141 (MQ=255)                                                                     ccAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtca                                                                   <  1:58270/141‑1 (MQ=255)                                                                     ccAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtca                                                                   <  2:280794/141‑1 (MQ=255)                                                                           gTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGAAAAAAAGTTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGtt                                                             >  1:95522/1‑141 (MQ=255)                                                                                 ggTTATTCAGCTCAATATCAATTAACTAATGATGATTATATTGTAGTACGATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGatat                                                       <  2:201037/140‑1 (MQ=255)                                                                                                  tCAATTAACTAATGATGATTATAATGTAAAACAATTACATAAAAGATATGACATACCAACAAATAAAGAGCCGAAGCTGTAGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTGGGATATAAAAAAATTGAATTTAc                                      >  2:36993/1‑141 (MQ=255)                                                                                                   cAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACt                                     <  1:50210/141‑1 (MQ=255)                                                                                                          cTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTag                              <  1:169175/141‑1 (MQ=255)                                                                                                          cTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACAAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGCATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTag                              >  2:94145/1‑141 (MQ=255)                                                                                                                atgatTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATa                        >  2:51499/1‑141 (MQ=255)                                                                                                                   atTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAGAAAATTGAATTTACTTTTTTAGAGAATaaaa                     >  2:3280/1‑141 (MQ=255)                                                                                                                    ttATAATGTAAAACAATTACGTAAAAGATATGACCTACCAACAAATAAAGCGCCGAAGCTGTTGTAGCAAGGTACAGGGAATTTAAAAGGTTCAACAGTTGGATAGAAAAAAATTAAATTAACGTTTTTCGAGCAtgcaaa                    >  2:150215/1‑136 (MQ=14)                                                                                                                                      aCGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtttactttac  <  2:95522/141‑1 (MQ=255)                                                                                                                                         |                                                                                                                                          AGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATTTACTTTAC  >  CP000730/111424‑111697

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑