Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 36,581 C→T 20.1% intergenic (‑30/‑493) tpn ← / → USA300HOU_0028 IS431mec transposase/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP00073036,5810CT20.1% 48.0 / 8.6 25intergenic (‑30/‑493)tpn/USA300HOU_0028IS431mec transposase/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (8/12);  new base T (2/3);  total (10/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.98e-01

CCTTAATATTTCAGATATATCACGATAACTCAATGTATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATACTTAAGTTTAATTTCGTTATTACAGAACCACACATTCCAACCAGAAGAGAAAGTATGTCTATTTAGTTATGGTT  >  CP000730/36444‑36728
                                                                                                                                         |                                                                                                                                                   
tcTTAATATTTCAGATATATCACGATAGCTCAATGCATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATATGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATATTATAAATTCaa                                                                                                                                          <  2:25317/148‑1 (MQ=255)
        tttCAGATATATCACGATAACTCAATGTATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCaa                                                                                                                                  <  2:279658/149‑1 (MQ=35)
                atatCACGATAGCTCAATGCATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATATTATAAATTCAACTTTGCAACAGAACCg                                                                                                                          <  2:211128/149‑1 (MQ=2)
                  atCACGATAGCTCAATGCATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATATTATAAATTCAACTTTGCAACAGAACCGta                                                                                                                        >  1:50650/1‑149 (MQ=255)
                  atCACGATAGCTCAATGCATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATATTATAAATTCAACTTTGCAACAGAACCGta                                                                                                                        >  1:43463/1‑149 (MQ=255)
                  atCACGATAACTCAATGTATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTGTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGta                                                                                                                        <  2:45289/149‑1 (MQ=37)
                    cACGATAACTCAATGTATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTTTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGtatt                                                                                                                      >  2:85408/1‑149 (MQ=255)
                      cGATAGCTCAATGCATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATATTATAAATTCAACTTTGCAACAGAACCGtatttt                                                                                                                    <  1:215526/149‑3 (MQ=255)
                         aaaCTCAATGTATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGa                                                                                                                 <  2:255805/148‑1 (MQ=255)
                                  gTATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATg                                                                                                        <  1:129844/149‑1 (MQ=255)
                                       tCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGt                                                                                                   >  2:143411/1‑149 (MQ=255)
                                        cTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTa                                                                                                  <  2:181431/149‑1 (MQ=255)
                                         ttAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTaa                                                                                                 >  1:195361/1‑149 (MQ=255)
                                         ttAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTaa                                                                                                 >  2:57531/1‑149 (MQ=255)
                                                    ccAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAAGTCAACTTTGCAACAGAACNGTATTATGGAATNGAGATGTTGGTAACATTTATACAg                                                                                      <  1:170670/149‑1 (MQ=255)
                                                               aGTGATAACATCCTTGTTTAATTGTTTATGTCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATAc                                                                           <  2:136330/149‑1 (MQ=255)
                                                                                  aaTTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACGGAACCGTATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATATTTAAGTTTAATTTTGttat                                                        >  1:115961/1‑149 (MQ=255)
                                                                                  aaTTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATACTTAAGTTTAATTTCGttat                                                        >  1:189972/1‑149 (MQ=255)
                                                                                   aTTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATACTTAAGTTTAATTTCGttatt                                                       >  1:56593/1‑149 (MQ=255)
                                                                                           tatCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAAACGTATTATGGAATAGAGATGTTGGTAAACATTATACAGGATCATTATACTTAAGTTTAATTTCGTTATTACAGAAcc                                               >  1:120766/1‑149 (MQ=255)
                                                                                                            aCAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAGCAGAACCGGATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATACTTAAGTTTAATTTCGTTATTACAGAACCACACATTCCAACCagaa                              <  1:212512/149‑1 (MQ=255)
                                                                                                                  gaCTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATACTTAAGTTTAATTTCGTTATTACAGAACCACACATTCCAACCAGAAGAGaaa                        <  2:118993/149‑1 (MQ=255)
                                                                                                                               tAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATACTTAAGTTTAATTTCGTTATTACAGAACCACACATTCCAACCAGAAGAGAAAGTATGTCTATTTa           <  1:85408/149‑1 (MQ=255)
                                                                                                                                 aaaTTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATACTTAAGTTTAATTTCGTTATTACAGAACCACACATTCCAACCAGAAGAGAAAGTATGTCTATTTAGt         <  2:57164/149‑1 (MQ=255)
                                                                                                                                        aCTATAAATTCAATTCAGCAACAGAACCGTATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATACTTAAGTTTAATTTCGTTATTACAGAACCACACATTCCAACCAGAAGAGAAAGTATGTCTATTTAGTTATGGtt  <  1:243778/149‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                                   
CCTTAATATTTCAGATATATCACGATAACTCAATGTATATCTTAGATAGTAGCCAACGGCTACAGTGATAACATCCTTGTTAAATTGTTTATATCTGAAATAGTTCATACAGAAGACTCCTTTTTGTTAAAATTATACTATAAATTCAACTTTGCAACAGAACCGTATTATGGAATAGAGATGTTGGTAACATTTATACAGGATCATTATACTTAAGTTTAATTTCGTTATTACAGAACCACACATTCCAACCAGAAGAGAAAGTATGTCTATTTAGTTATGGTT  >  CP000730/36444‑36728

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