Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,354,081 C→A 25.0% E242* (GAA→TAA)  USA300HOU_1269 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,354,0810CA25.0% 34.5 / 5.1 16E242* (GAA→TAA) USA300HOU_1269hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (9/3);  new base A (2/2);  total (11/5)
Fisher's exact test for biased strand distribution p-value = 5.47e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTTTGATTTTACTTGAATATAGCTGTGATTTGATCAACCTGTTCTTTATTTAAAGGGTGTTTAGATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACTTTAAAGTTAAAGTTTTGTTCAATATGATCCTTTAATGCTTTCGCATTATTTGCTGCTAATTGATA  >  CP000730/1353942‑1354210
                                                                                                                                           |                                                                                                                                 
cTTTGATTTTACTTGAATATAGCTGTGATTTGATCAACCTGTTCTTTATTTAAAGGGTGTTTAGATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCtctttct                                                                                                                                  <  2:56853/141‑1 (MQ=255)
  tttaTTTTACTTGAATATAGCTGTGATTTGATCAACCTGTTCTTTATTTAAAGGTTTTTTAGATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTttcttc                                                                                                                                <  1:46649/138‑1 (MQ=255)
          aCTTGAATATAGCTGTGATTTGATCAACCTGTTCTTTATTTAAAGGGTGTTTAGATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCtt                                                                                                                        >  1:63505/1‑141 (MQ=255)
                    aGCTGTGATTTGATCAACCTGTTCTTTATTTAAAGGGTGTTTAGATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATAtt                                                                                                              >  1:34692/1‑141 (MQ=255)
                                 tCAACCTGTTCTTTATTTAAAGGGTGTTTAGATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCa                                                                                                 >  2:66182/1‑141 (MQ=255)
                                     ccTGTTCTTTATTTAAAGGGTGTTTAGATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTATTCAGAACCTTGAATGATATTAACTGTACCATCACTaa                                                                                             >  1:62589/1‑141 (MQ=255)
                                     ccTGTTCTTTATTTAAAGGGTGTTTAGATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTATTCAGAACCTTGAATGATATTAACTGTACCATCACTaa                                                                                             >  1:62621/1‑141 (MQ=255)
                                                      gggTGTTTAGATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTATCTGTACCATCACTAAAGTAAATAACACCGGTa                                                                            >  2:93729/1‑141 (MQ=255)
                                                               gATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACt                                                                   >  1:81543/1‑141 (MQ=255)
                                                                aTAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACtt                                                                  >  1:85698/1‑141 (MQ=255)
                                                                       tATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACTttaaagtt                                                           >  2:63110/1‑141 (MQ=255)
                                                                                      aataCGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACTTTAAAGTTAAAGTTTTGTTCAat                                            >  2:123418/1‑141 (MQ=255)
                                                                                         aCGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACTTTAAAGTTAAAGTTTTGTTCAATATg                                         <  2:124435/141‑1 (MQ=255)
                                                                                                             ttgAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACTTTAAAGTTAAAGTTTTGTTCAATATGATCCTTTAATGCTTTCGCat                     <  1:63110/141‑1 (MQ=255)
                                                                                                                   cTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACTTTAAAGTTAAAGTTTTGTTCAATATGATCCTTTAATGCTTTCGCATTATTtg               <  1:8943/141‑1 (MQ=255)
                                                                                                                             atatTTATCTCTTTATTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACTTTAAAGTTAAAGTTTTGTTCAATATGATCCTTTAATGCTTTCGCATTATTTGCTGCTAATTg     <  2:62589/141‑1 (MQ=255)
                                                                                                                             atatTTATCTCTTTATTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACTTTAAAGTTAAAGTTTTGTTCAATATGATCCTTTAATGCTTTCGCATTATTTGCTGCTAATTg     <  2:62621/141‑1 (MQ=255)
                                                                                                                                tttATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACTTTAAAGTTAAAGTTTTGTTCAATATGATCCTTTAATGCTTTCGCATTATTTGCTGCTAATTGATa  >  2:74052/1‑141 (MQ=255)
                                                                                                                                           |                                                                                                                                 
CTTTGATTTTACTTGAATATAGCTGTGATTTGATCAACCTGTTCTTTATTTAAAGGGTGTTTAGATAGCTCTATGGCTTCGCTAATAATACGTCGTAACGAAGATTTTGTTGAAACTGTATCAACATATTTATCTCTTTCTTCAGAACCTTGAATGATATTAACTGTACCATCACTAAAGTAAATAACACCGGTACTTTGGACTTTAAAGTTAAAGTTTTGTTCAATATGATCCTTTAATGCTTTCGCATTATTTGCTGCTAATTGATA  >  CP000730/1353942‑1354210

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: