Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,679,710 G→T 30.1% G65V (GGC→GTC)  USA300HOU_2536 → possible secretory antigen

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,679,7100GT30.1% 17.9 / 11.3 20G65V (GGC→GTC) USA300HOU_2536possible secretory antigen
Reads supporting (aligned to +/- strand):  ref base G (9/5);  new base T (4/2);  total (13/7)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.96e-01

CTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGCTGTCATGCAATCAACTGCAGGATATTATGGACATGTCGCAGTTGTTGAACAAGTATATAAAAAC  >  CP000730/2679584‑2679846
                                                                                                                              |                                                                                                                                        
cTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGTCAATGCTAAAAAt                                                                                                                             <  2:11355/140‑1 (MQ=255)
                    aCGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTaa                                                                                                         <  2:133223/140‑1 (MQ=255)
                         tCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCaa                                                                                                    >  2:153843/1‑140 (MQ=255)
                               gCATGCCGCAGTTAATTATTATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCAAAAAATTGGTATTACAATGCACGTAAACCAAAATATg                                                                                              >  2:243773/1‑140 (MQ=255)
                                cATGCCGCAGTTAATTATTATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCAAAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATgg                                                                                             >  2:52475/1‑139 (MQ=255)
                                 aTGCCGCAGTTAATTATTATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGATAAACCTGTTTCTAATAGATGGGTCAATGCTAAAAATTGGTATTACAATGCACGTAAACCAAAATATGCg                                                                                            >  1:148754/1‑140 (MQ=255)
                                             attattATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGTCAATGCTAAAAATTGAAATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTaca                                                                                >  1:53838/1‑140 (MQ=255)
                                                     aGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGaaa                                                                        <  1:153843/140‑1 (MQ=255)
                                                        aaaaaCCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAAtt                                                                     <  1:112568/140‑1 (MQ=255)
                                                               aaTGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTCAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGCCGTACACCAAGAAAATTTGCAGTc                                                              >  1:79075/1‑140 (MQ=255)
                                                                           gggAATTTAAACGTCGCGCACAAGTCGGTAAACCTGGTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCAAGAAAAATAATAAAAAATACAATACGAACACCAAGAAAATTTGCTGTCATGCAATCAACt                                                  >  1:22402/1‑140 (MQ=255)
                                                                                 ttAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGCTGTCATGCAATCAACTGCAGGa                                            >  1:82151/1‑140 (MQ=255)
                                                                                          gcgcACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAACATTTGATGTCATGCAATCAGCTGGAGGacatactagt                                   >  1:239994/1‑134 (MQ=255)
                                                                                            gcACAAGTCGGTAAACCTGTATCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACCTAATTCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGCTGTCATGCAATCAACTGCAGGATGTTATGGACa                                 >  2:281248/1‑140 (MQ=255)
                                                                                             cacaAGTCGGTAAACCTGTTTCTAATAGATGGGTCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGCTGTCATGCAATCAACTGCAGGATATTATGGACAt                                >  1:142767/1‑140 (MQ=255)
                                                                                                aaGTCGGTAAACCTGTTTCTAATTGATGGGTCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGCTGTCATGCAATCAACTGCAGGATATTATGGACATGTc                             <  1:234551/140‑1 (MQ=255)
                                                                                                aaGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGCTGTCATGCAATCAACTGCAGGATATTATGGACATGTc                             <  1:29196/140‑1 (MQ=255)
                                                                                                         aaCCTGTTTCTAATAGATGGGGAAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGCTGTCATGCAATCAACTGCAGGATATTATGGACATGTCGCAgttgtt                    <  1:199925/140‑1 (MQ=255)
                                                                                                           ccTGTTTCTAATAGATGGGTCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGATGTCAAGCAATCAACTGCAGGAGATTATGGACATGTCGCAGTGGTTGa                  >  2:244667/1‑140 (MQ=255)
                                                                                                                  cTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGCTGTCATGCAATCAACTGCAGAATATTATGGACATGTCGCAGTAGTTAAACAAGta           >  2:271216/1‑140 (MQ=255)
                                                                                                                           ggggCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGCTGTCATGCAATCAACTGCAGGATATTATGGACATGTCGCAGTTGTTGAACAAGTATATAAAAAc  <  1:273832/140‑1 (MQ=255)
                                                                                                                              |                                                                                                                                        
CTTATCAATCCGTCGAACAAACGCATCAATCGCATGCCGCAGTTAATTATTATAGTAAAAACCAATGTACATGGTGGGCATTTAAACGTCGCGCACAAGTCGGTAAACCTGTTTCTAATAGATGGGGCAATGCTAAAAATTGGTATTACAATGCACGTAAATCAAAATATGCGACTGGTCGTACACCAAGAAAATTTGCTGTCATGCAATCAACTGCAGGATATTATGGACATGTCGCAGTTGTTGAACAAGTATATAAAAAC  >  CP000730/2679584‑2679846

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: