Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,367,543 T→C 10.5% intergenic (‑660/+4898) rpmC ← / ← USA300HOU_2234 ribosomal protein L29/NCS2 family nucleobase:cation symporter‑2

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,367,5430TC10.5% 90.2 / 2.4 36intergenic (‑660/+4898)rpmC/USA300HOU_2234ribosomal protein L29/NCS2 family nucleobase:cation symporter‑2
Reads supporting (aligned to +/- strand):  ref base T (16/16);  new base C (2/2);  total (18/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01

TCAGCGTGTGCATAATCGATGTCAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGTTTTCAGCTACTAAACGAGCGTCAAGATCAACTTTTTTGATTTCAATTACGTTGATGTG  >  CP000730/2367404‑2367669
                                                                                                                                           |                                                                                                                              
tCAGCGTGTGCATAATCGATGTCAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATa                                                                                                                               >  1:26699/1‑141 (MQ=255)
   gCGTGTGCATAATCGATGTCAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGct                                                                                                                            <  2:197254/141‑1 (MQ=255)
   gCGTGTGCATAATCGATGTCAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGct                                                                                                                            >  2:260563/1‑141 (MQ=255)
     gtgtGCATAATCGATGTCAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGctct                                                                                                                          <  1:73950/141‑1 (MQ=255)
          cATAATCGATGTCAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCGGATACTTGAGTTTTGCTACCTTTAGCACAAAGTTTCATAGCTCTAGTgt                                                                                                                     >  2:146615/1‑140 (MQ=255)
          cATAATCGATGTCAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGa                                                                                                                     >  2:252923/1‑141 (MQ=255)
             aatcgcgatCAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTg                                                                                                                  <  2:120595/133‑1 (MQ=255)
             aaTCGATGTCAGCACGTAACGTATGAAGTTGAACATGTCCTTCTAAATGCTCATCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTg                                                                                                                  <  1:338769/141‑1 (MQ=255)
                 gATGTCAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATTTCAGCTCCGCCTAAACGACCAGATCCTTGAGTTTTGATACCTTTAGCACCAAGTTTCCTCGCCCTCGCGATTGCTTg                                                                                                              >  2:263741/1‑141 (MQ=255)
                      cAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTTGCACCAAGTTTCATAGCCCTAGGGATTGATGCttttt                                                                                                         >  2:124875/1‑141 (MQ=255)
                      cAGCACGTAACGTATGAACTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTTAGCTCCGCCTAAACGACCAGATACATGAGATTTGATACCCTTAGCACCAAGTTTCATAGCTCTGGTgctggccgtttgtt                                                                                                         >  2:35655/1‑128 (MQ=255)
                             taacgtaTGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTAAacg                                                                                                  >  2:152858/1‑141 (MQ=255)
                                   aTGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGaa                                                                                            >  1:176975/1‑141 (MQ=255)
                                      aaGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGa                                                                                         <  2:219126/141‑1 (MQ=255)
                                        gTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAg                                                                                       <  2:204081/141‑1 (MQ=255)
                                          ggAACCGTTCCTGCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTGTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCa                                                                                     <  2:233251/141‑1 (MQ=255)
                                              cAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGt                                                                                 <  2:133125/141‑1 (MQ=255)
                                                  tCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAGGCACGGTTTTc                                                                             >  1:313015/1‑141 (MQ=255)
                                                         gAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGa                                                                      <  2:266498/141‑1 (MQ=255)
                                                               tgtttcgCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCg                                                                <  1:11720/135‑1 (MQ=255)
                                                               tGTTCAGCACGAGCGACGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCg                                                                <  1:12384/141‑1 (MQ=255)
                                                                gTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCACAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGa                                                               >  2:210007/1‑141 (MQ=255)
                                                                gTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCACAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGAGCGa                                                               >  2:210098/1‑141 (MQ=255)
                                                                 ttCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGAt                                                              >  1:315064/1‑141 (MQ=255)
                                                                   cAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGt                                                            >  1:311162/1‑141 (MQ=255)
                                                                     agaCGAGCGATTTCAGCTCCGCCTAAACGACCACATACTCTAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTCTTTGCACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGttt                                                          <  2:114152/139‑1 (MQ=255)
                                                                      cACGAGCGATGTCAGTTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGtttt                                                         >  1:256318/1‑141 (MQ=255)
                                                                                  cAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGGGCGATGTTTTCAGCTACTAAAc                                             >  1:19352/1‑141 (MQ=255)
                                                                                    gCTCCGCCTAACCGACCAGATACTTGAGTCTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGTTTTCAGCTACTAAACGa                                           <  2:193801/141‑1 (MQ=255)
                                                                                                  aCCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTGTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGTTTTCAGCTACTAAACGAGCGTCAAGATCAAc                             <  1:258108/141‑1 (MQ=255)
                                                                                                        tACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGTTTTCAGCTACTAAACGAGCGTCAAGATCAACtttttt                       <  1:273439/141‑1 (MQ=255)
                                                                                                                   tGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGTTTTCAGCTACTAAACGAGCGTCAAGATCAACTTTTTTGATTTCAATTa            >  2:70858/1‑141 (MQ=255)
                                                                                                                        ccTTTGGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGTTTTCAGCTACTAAACGAGCGTCAAGATCAACTTTTTTGATTTCAATTACGTTg       <  2:229390/141‑1 (MQ=255)
                                                                                                                           ttAGCACCAAGTTTCACAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGTTTTCAGCTACTAAACGAGCGTCAAGATCAACTTTTTTGATTTCAATTACGTTGAtg    <  1:210007/141‑1 (MQ=255)
                                                                                                                           ttAGCACCAAGTTTCACAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGTTTTCAGCTACTAAACGAGCGTCAAGATCAACTTTTCTGATTTCAATTACGTTGAtg    <  1:210098/141‑1 (MQ=255)
                                                                                                                             aGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATAAAGCACGGTTTTCTAATTGACGTGCGATGTTTTCAGCTACTAAACGAGCGTCAAGGTCAACTTTTTGGATTTCAATTCCGTTGagtgg  >  1:39534/1‑137 (MQ=255)
                                                                                                                                           |                                                                                                                              
TCAGCGTGTGCATAATCGATGTCAGCACGTAACGTATGAAGTGGAACAGTTCCTTCTGAATATTGTTCAGCACGAGCGATGTCAGCTCCGCCTAAACGACCAGATACTTGAGTTTTGATACCTTTAGCACCAAGTTTCATAGCTCTAGTGATTGCTTGTTTTTGTACACGACGGAATGAAGCACGGTTTTCTAATTGACGTGCGATGTTTTCAGCTACTAAACGAGCGTCAAGATCAACTTTTTTGATTTCAATTACGTTGATGTG  >  CP000730/2367404‑2367669

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: