Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	2,801,812	C→T	32.0%	D135N (GAT→AAT)	USA300HOU_2647 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,801,812	0	C	T	32.0%	40.6 / 23.7	34	D135N (GAT→AAT)	USA300HOU_2647	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (12/11);  new base T (6/5);  total (18/16)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01

CGAGCTTTGAAGGGAAAAAGTAAGACTTCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACAATTCTAGGGCGCTCTCCACTTTGATAAAATATTT  >  CP000730/2801680‑2801940                                                                                                                                     |                                                                                                                                 cgaGCTTTGAAGGGAAAAAGTAAGACTTCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTaaagcg                                                                                                                          <  1:116842/141‑4 (MQ=255)   aGCTTTGAAGGGAAAAAGTAAGACTTCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGtt                                                                                                                        >  1:227437/1‑141 (MQ=255)     cTTAGAAGGGAAAAAGTAAGACTTCCCATCCCAATCCAATAAGACATCAGAGGTTACAATATTTTCATAATTCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATTCTAAACAGTTtg                                                                                                                      <  2:209292/141‑1 (MQ=255)               agaatgtgaGACTTCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTa                                                                                                            >  2:2495/9‑141 (MQ=255)                  aaGTAAGACTTCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATa                                                                                                         <  1:71102/141‑1 (MQ=255)                     tAAGACTTCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCa                                                                                                      <  1:241948/141‑1 (MQ=255)                      aaGACTTCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCAt                                                                                                     >  1:87627/1‑141 (MQ=255)                        gACTTCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATAcgccga                                                                                                   >  2:249308/1‑136 (MQ=255)                         aCTTCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATTGTAAACAGTTTGTGCAAATTTAATACCATTCt                                                                                                  <  2:7821/141‑1 (MQ=255)                            tCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAg                                                                                               <  1:222550/141‑1 (MQ=255)                            tCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAg                                                                                               <  2:172203/141‑1 (MQ=255)                                 tGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATACATCACTTCTTTACCTTCTGCTGTCGTATATTTCTTCAAGATCGCTTTACGATTTAAATTGTAAACAGTGTGTGCAGATTTCATCACATTTTTAGcatat                                                                                          >  2:848/1‑140 (MQ=255)                                   ccaatccaatATGACATCAGATGTTACAAAATTTTCATAAATCGCTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGaataata                                                                                        >  2:103321/1‑141 (MQ=255)                                   ccaatccaatATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGaataata                                                                                        >  2:9976/1‑141 (MQ=255)                                        ccaatATGACAGCAGATGTTACAAAATTTTCATAACTCACGTCTGTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGGAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGa                                                                                   <  1:20393/141‑1 (MQ=255)                                          aatATCATATCAGTTGTTACAAAATTTTCATAAATCCNTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATTGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACa                                                                                 <  2:228141/141‑1 (MQ=255)                                           atatGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATTGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACaa                                                                                >  1:188474/1‑141 (MQ=255)                                           atatGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACaa                                                                                >  2:71487/1‑141 (MQ=255)                                              tGACATCAGATGTTACAAAATTTTCATAACTCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATc                                                                             <  1:94369/141‑1 (MQ=255)                                                aCATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCgg                                                                           >  2:236113/1‑141 (MQ=255)                                                  cgcccgtgtatcAAAATTTGCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCGTAGAATAATAATCGACAAATCGGac                                                                         <  2:125686/130‑1 (MQ=255)                                                   tctgATGTTACAAAATTTTCATAAATCACTTCTTTTCCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATTGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGaca                                                                        <  2:18818/138‑1 (MQ=255)                                                                      cATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATTGTAAACAGTTTGTGCAAATTTAATACAATTCTTTGAATAATAATCGACAAATCGTGCACGTTGTAGGTCATCAAccc                                                     >  1:169208/1‑141 (MQ=255)                                                                        tAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCAt                                                   <  1:9976/141‑1 (MQ=255)                                                                                     tACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTaa                                      >  1:176168/1‑141 (MQ=255)                                                                                            tgctgTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACAATTCt                               >  2:188225/1‑141 (MQ=255)                                                                                                       atTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACAATTCTAGGGCGCtctc                    >  2:248320/1‑141 (MQ=255)                                                                                                          tcttcAAGATCGCTTTACGATTTAAATTGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACAATTCTAGGGCGCTCTCCAc                 <  1:114582/141‑1 (MQ=255)                                                                                                            ttcAAGATCGCTTTACGATTTAAATTGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACCTTTCTAGGGCGCTCTCCACtt               >  2:234810/1‑141 (MQ=255)                                                                                                                   tCGCTTTACGATTTAAATTGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACAATTCTAGGGCGCTCTCCACTTTGATaaa        >  2:44260/1‑141 (MQ=255)                                                                                                                   tCGCTTTACGATTTAAATTGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACAATTCTAGGGCGCTCTCCACTTTGATaaa        >  2:154128/1‑141 (MQ=255)                                                                                                                        ttACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACAATTCTAGGGCGCTCTCCACTTTGATAAAATAtt   <  2:14620/141‑1 (MQ=255)                                                                                                                        ttACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACAATTCTAGGGCGCTCTCCACTTTGATAAAATAtt   <  1:6978/141‑1 (MQ=255)                                                                                                                         tACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACAATTCTAGGGCGCTCTCCACTTTGATAAAATAttt  >  2:42840/1‑141 (MQ=255)                                                                                                                                     |                                                                                                                                 CGAGCTTTGAAGGGAAAAAGTAAGACTTCCCTTGCCAATCCAATATGACATCAGATGTTACAAAATTTTCATAAATCACTTCTTTACCTTCTGCTGTCATATATTTCTTCAAGATCGCTTTACGATTTAAATCGTAAACAGTTTGTGCAAATTTAATACCATTCTTAGAATAATAATCGACAAATCGGACACGTTGTTGGTCATCAAACCATTCGACACGACTAACAATTCTAGGGCGCTCTCCACTTTGATAAAATATTT  >  CP000730/2801680‑2801940

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑