Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,719,269:1 (A)5→6 100% coding (213/705 nt) USA300HOU_2573 → dehydrogenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,719,2641.A52.8% 64.3 / 67.1 36coding (208/705 nt)USA300HOU_2573dehydrogenase
Reads supporting (aligned to +/- strand):  ref base . (8/9);  new base A (11/8);  total (19/17)
Fisher's exact test for biased strand distribution p-value = 7.39e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

GCATTGGGTTACAAAGTTTATATAGGTTCTCGGAATGATGTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGAAGAAGTATATCAAACGAATGTATTCGGTATCGTACGAATGA  >  CP000730/2719126‑2719396
                                                                                                                                           |                                                                                                                                     
gCATTGGGTTACAAAGTTTATATAGGTTCTCGGAATGATGTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGaa                                                                                                                                     >  1:270498/1‑141 (MQ=255)
   ttGGGTTACAAAGTTTATATAGGTTCTCGGAATGATGTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGaaaaa                                                                                                                                 >  2:219962/1‑141 (MQ=255)
        ttACAAAGTTTATATAGGTTCTCGGAATGATGTAAGAGCACAACAAGCAACAACGAAATAAGGTCCGCTATAAGCACTGTTAGATATAATAGGTTATGTCTCGATCAATAATGTTTATAACATAATTGCTGcaaaaacaag                                                                                                                            >  2:205060/1‑136 (MQ=255)
                  tatataGGTTCTCGGAATGATGTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGa                                                                                                                   <  1:218156/141‑1 (MQ=255)
                    tataGGTTCTCGGAATGATGTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGata                                                                                                                 <  2:176326/141‑1 (MQ=255)
                      taGGTTCTCGGAATGATGTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATcc                                                                                                              <  2:21705/141‑1 (MQ=255)
                               ggAATGATGTAAGAGGACAACCAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTAAAAGTGACTACTCAGTCAAAAATCCTTATAAACTGATTGATGAAAACGAAACCCGACTTGATATCCTcgtgagca                                                                                                     >  2:192544/1‑134 (MQ=255)
                               ggAATGATGTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAAc                                                                                                      >  1:16744/1‑141 (MQ=255)
                                  atgatgTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATg                                                                                                  >  1:177070/1‑141 (MQ=255)
                                   tgatgTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATg                                                                                                  >  2:143661/1‑141 (MQ=255)
                                   tgatgTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATg                                                                                                  >  2:143692/1‑141 (MQ=255)
                                    gatgTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGc                                                                                                 <  1:193232/141‑1 (MQ=255)
                                                   aaaaaataaaaaaaaTTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCaa                                                                                 <  2:83453/131‑1 (MQ=255)
                                                               aaaTTAGGTGTTCATTATGTACAATTAGATGTTATAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCt                                                                     <  2:119656/141‑1 (MQ=255)
                                                                    aGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCa                                                                 >  1:216230/1‑141 (MQ=255)
                                                                     ggTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCaaa                                                               >  1:76143/1‑141 (MQ=255)
                                                                      gtgtTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAAt                                                              <  2:108389/141‑1 (MQ=255)
                                                                        tttCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTg                                                            <  2:217652/140‑1 (MQ=255)
                                                                                tGTACAATTAGATGTGACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCg                                                    <  2:177070/141‑1 (MQ=255)
                                                                                 gTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGt                                                   >  2:260337/1‑141 (MQ=255)
                                                                                  tACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGTAGGTATATCTGGTCAATTTTCAGCACCTCCCAAATTGACACCTCGTg                                                  >  2:38385/1‑141 (MQ=255)
                                                                                  tACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGCATATCTGGTCAATTTTCAGCACCTTCCAAATTGGCACCTCGTg                                                  >  1:136731/1‑141 (MQ=255)
                                                                                       tgaGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGTCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCAGCTTCCAAATTGACACCTCGTGACGt                                              <  2:270157/139‑1 (MQ=255)
                                                                                         aGATGTTACAAGTGACTACGCAGTCGAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTAGATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTg                                            <  2:94550/141‑1 (MQ=255)
                                                                                          aaTGTCACAAGTGACTACTCAGTCAAAAATGCTTATAACATTATTGCCGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTgaa                                          <  2:11217/140‑1 (MQ=255)
                                                                                           aTGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCCATTTTCAGCACCTTCCAAATTGACACCTCGTGCCGTTgaa                                          >  1:194020/1‑141 (MQ=255)
                                                                                               tACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGaagaag                                      <  2:227110/141‑1 (MQ=255)
                                                                                               tACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGaagaag                                      <  1:46412/141‑1 (MQ=255)
                                                                                                aCAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGAAGAAGt                                     >  1:276148/1‑141 (MQ=255)
                                                                                                 cAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCCGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGAAGAAGtat                                   <  1:276253/141‑1 (MQ=255)
                                                                                                   aGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGAAGAAGtata                                  >  1:58661/1‑141 (MQ=255)
                                                                                                   aGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATACTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCCAATTGACACCTCGTGACGTTGAAGAAGtata                                  >  2:51724/1‑141 (MQ=255)
                                                                                                       actactCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGAAGAAGTATAACaaa                             >  1:3577/1‑141 (MQ=255)
                                                                                                           ctCAGTCAAAAATGCTCATAAGATGATTGCTGAAGAAAGAATGGTGTCGTGATATCCTCTTTAACTATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGAAGAAGTATATCAAACGa                          <  2:110723/141‑1 (MQ=255)
                                                                                                              aGTCAAAAATGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACATCGTTACGTTGAAGAAGTATATCAAACGAATg                       <  2:116125/141‑1 (MQ=255)
                                                                                                                     aaTGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCAAATTCCTATTTGACACCTCGTGACGTTGAAGAAGTATATCAAACGAATGTATTCGGt               >  1:190789/1‑141 (MQ=255)
                                                                                                                       tGCTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGAAGAAGTATATCAAACGAATGTATTCGGTa              >  1:137366/1‑141 (MQ=255)
                                                                                                                         cTTATAACATGATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGAAGAAGTATATCAAACGAATGTATTCGGTATc            >  1:244268/1‑141 (MQ=255)
                                                                                                                                   gATTGCTGAAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGAAGAAGTATATCAAACGAATGTATTCGGTATCGTACGAatga  >  1:168547/1‑141 (MQ=255)
                                                                                                                                           |                                                                                                                                     
GCATTGGGTTACAAAGTTTATATAGGTTCTCGGAATGATGTAAGAGGACAACAAGCATCACAAAAATTAGGTGTTCATTATGTACAATTAGATGTTACAAGTGACTACTCAGTCAAAAATGCTTATAACATGATTGCTGAAAAAGAAGGCCGTCTTGATATCCTCATTAACAATGCAGGTATATCTGGTCAATTTTCAGCACCTTCCAAATTGACACCTCGTGACGTTGAAGAAGTATATCAAACGAATGTATTCGGTATCGTACGAATGA  >  CP000730/2719126‑2719396

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: