Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	2,483,375	G→T	76.2%	V45F (GTC→TTC)	USA300HOU_2346 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,483,375	0	G	T	76.2%	24.4 / 4.9	20	V45F (GTC→TTC)	USA300HOU_2346	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (2/3);  new base T (11/4);  total (13/7)
Fisher's exact test for biased strand distribution p-value = 2.90e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TAACCTATGATGAAACTCAATTTATTTATCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAATTACGACTT  >  CP000730/2483237‑2483497                                                                                                                                           |                                                                                                                           tAACCTATGATGAAACTCAATTTATTTATCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTc                                                                                                                          >  1:225230/1‑141 (MQ=255)  aaCCTATGATGAAACTCAATTTATTTATCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCg                                                                                                                         >  1:221843/1‑141 (MQ=255)           tgaAACTCAATTTATTTATCAATGCAAATGAGACGGAGTCTTATATTGGTATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAAGCACATACATTATTCGGAACCATaa                                                                                                                >  2:203107/1‑140 (MQ=255)                cTCAATTTATTTATCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGCCaaa                                                                                                           >  1:75349/1‑141 (MQ=255)                           tatCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCatat                                                                                                >  2:243414/1‑141 (MQ=255)                                                 tCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGGCAAAGAAATCCATATCATTAATGTATCAGATGTtata                                                                          <  2:245737/141‑1 (MQ=255)                                                   ttATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAAc                                                                        <  1:72403/141‑1 (MQ=255)                                                                      acTAAAATGAATGATAACGTTCGAAGTACTATTAATGCAGTAAATGCTTTACACAAATCACATTCACTAGTCAGATACATGGACAAAGAAATCCATATCATTATTGTATCAGATGTTATAACATTCCAAGTTATTAATaaa                                                     <  2:185991/140‑1 (MQ=255)                                                                       cTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATaaaa                                                    <  1:76086/141‑1 (MQ=255)                                                                       cTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATaaaa                                                    >  2:222087/1‑141 (MQ=255)                                                                           aatgaatgATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGt                                                >  1:223850/1‑141 (MQ=255)                                                                                        gTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCCTTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACa                                   >  2:26421/1‑141 (MQ=255)                                                                                        gTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAAAAGCCATTACa                                   >  2:26293/1‑141 (MQ=255)                                                                                                       aaTGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGACGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAACCAAAAATTc                    >  2:32777/1‑141 (MQ=255)                                                                                                        aTGCAGTCAAGTCTTTACACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCa                   <  2:225230/141‑1 (MQ=255)                                                                                                                 aTGATTTAGACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAAt          <  2:221843/141‑1 (MQ=255)                                                                                                                       tAGACAAATCACATACATTATTCGGATACATAGCCAAAGAAATCCATATGATTAATGTATCAGATGTTATAACATTCGACGGTATTAATTAAAATGTAACGGCCAGTACCAGCAATGAAAAATTACACCTCAAAttccacc    >  2:131054/1‑136 (MQ=255)                                                                                                                         gACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAATTACGACtt  >  1:104721/1‑141 (MQ=255)                                                                                                                         gACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAATTACAACtt  >  2:14878/1‑141 (MQ=255)                                                                                                                         gACAAATCACATACAATATTAGGATAAATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAATTACGACtt  <  2:156713/141‑1 (MQ=255)                                                                                                                                           |                                                                                                                           TAACCTATGATGAAACTCAATTTATTTATCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAATTACGACTT  >  CP000730/2483237‑2483497

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑