Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,709,444 (T)6→5 100% coding (1483/1812 nt) USA300HOU_2562 ← possible acetyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,709,4390T.83.3% 68.6 / 12.2 24coding (1488/1812 nt)USA300HOU_2562possible acetyltransferase
Reads supporting (aligned to +/- strand):  ref base T (4/0);  new base . (8/12);  total (12/12)
Fisher's exact test for biased strand distribution p-value = 9.32e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

TACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTGCATTTGGTATTTTCTTAGTAAAGACATTACCAATATCCACCATGACCGAGTCA  >  CP000730/2709306‑2709574
                                                                                                                                     |                                                                                                                                       
tACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCtttttagc                                                                                                                                  <  2:230193/141‑4 (MQ=255)
  ccTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACTTTTTTTAGCa                                                                                                                                >  1:347495/1‑141 (MQ=255)
      cATAATCTCTAGGTACTCTAATAGAAACTAAATATCTGTCTGCTTTTCCAAAACTATCCATTAGTTCATTTAGTTGATCTTTCGTAAATGCCCCATTTGTACTCAGCTCTACTACACCTTTTTGACCTTTTTAGCATattt                                                                                                                           >  2:43016/1‑138 (MQ=255)
       aTAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCt                                                                                                                          >  2:262848/1‑141 (MQ=255)
                  gTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCAGAGTCTTTATATTGCGa                                                                                                               >  2:308405/1‑141 (MQ=255)
                                       atatGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATc                                                                                          <  1:296663/141‑1 (MQ=255)
                                         atGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCaa                                                                                        <  1:194688/141‑1 (MQ=255)
                                                  ttcccAAAACTATCCAATAGTTCATTTAATTGAACTTTCGTAAATGCCCCAATTGTCCCAAGCACTACTACAACTTTTTGACCTTTCTTAGCATAGTCGTTATATTGCGATTTCACACTTGTTATAACATCAACGAGTTGc                                                                                >  2:356824/4‑141 (MQ=255)
                                                     ccAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTGCTACAACTTTTCGACCTTTTTAGCATAGTCTTTATATTGCAATTTCACAATTGGTGTTGCATCAACGAGTTGCCGTc                                                                            >  1:12173/1‑141 (MQ=255)
                                                          aCTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACt                                                                       >  2:243319/1‑141 (MQ=255)
                                                                cAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCa                                                                 <  2:337407/141‑1 (MQ=255)
                                                                 aaTTGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCAt                                                                <  2:361685/141‑1 (MQ=255)
                                                                 aaTAGTTCATTTAATTGATCTTTCGTAAATGCCTCATTTGTACCAAGCTCTACGAGAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTGCACAATTGGTGTAGCATCAACGACTTGCCGTCCAACTTTACCAt                                                                <  2:216360/141‑1 (MQ=255)
                                                                  aTAGTTCATTTAATTGAGCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATc                                                               <  1:48948/141‑1 (MQ=255)
                                                                          tttAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTtgtg                                                       <  2:302087/141‑1 (MQ=255)
                                                                                tGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGCTTTCACAAGTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTGCATTTg                                                 <  2:163202/141‑1 (MQ=255)
                                                                                  aTCTTTCGTAAATGCCCCATGTGTACCAAGCTCTACTACAACTTTTTGACCTTTGTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTGCATTTGGt                                               >  1:256193/1‑141 (MQ=255)
                                                                                       tCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTTCATTTGGTAttt                                           >  2:350020/1‑141 (MQ=255)
                                                                                       tCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTGCATTTGGTAttt                                           >  2:350009/1‑141 (MQ=255)
                                                                                          tAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTTTAGCATCAACGAGTTGCCGTCAAACTTTACCATCCATTTGTGCATTTGGTATTTTCtt                                       >  2:177591/1‑141 (MQ=255)
                                                                                              tGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTGCATTTGGTATTTTCTTAGTa                                   <  1:377651/141‑1 (MQ=255)
                                                                                                           ccAAGCTCTACTACAACTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTGCATTTGGTATTTTCTTAGTAAAGACATTACCaa                      >  1:190655/1‑141 (MQ=255)
                                                                                                                        cAACTTTTTGACCCTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTGCATTTGGTATTTTCTTAGTAAAGACATTACCAATATCCACCATGAc         <  1:6591/141‑1 (MQ=255)
                                                                                                                         aaCTTTTTGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTGCATTTGGTATTTTCTTAGTAAAGACATTACCAATATCCACCATGAcc        <  1:15590/141‑1 (MQ=255)
                                                                                                                               ttGACCTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTGCATTTGGTATTTTCTTAGTAAAGACATTACCAATATCCACCATGACCGAGTCa  <  1:262848/141‑1 (MQ=255)
                                                                                                                                     |                                                                                                                                       
TACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAAGCTCTACTACAACTTTTTGACCTTTTTTAGCATAGTCTTTATATTGCGATTTCACAATTGGTGTAGCATCAACGAGTTGCCGTCCAACTTTACCATCAATTTGTGCATTTGGTATTTTCTTAGTAAAGACATTACCAATATCCACCATGACCGAGTCA  >  CP000730/2709306‑2709574

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: