Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 463,014 C→A 100% E47* (GAA→TAA)  USA300HOU_0437 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730463,0140CA99.4% 94.6 / ‑6.7 33E47* (GAA→TAA) USA300HOU_0437hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  major base A (13/19);  minor base G (1/0);  total (14/19)
Fisher's exact test for biased strand distribution p-value = 4.24e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GCCGTCTTGTTTAGCTTTGTTGATAATGTCTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTCTAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCTTTTTAAATTT  >  CP000730/462877‑463149
                                                                                                                                         |                                                                                                                                       
gCCGTCTTGTTTAGCTTTGTTGATAATGTCTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATTTAATAACACATCAATATAACTTCATTCATGTTGTa                                                                                                                                       >  1:246892/1‑140 (MQ=255)
 ccGTCTTGTTTAGCTTTGTTGATAATGTCTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATaa                                                                                                                                      <  2:229584/140‑1 (MQ=255)
  cGTCTTGTTTAGCTTTGTTGATAATGTCTTTGATTGAATGTAGTCCTTTATCGGGGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATaag                                                                                                                                     >  1:237129/1‑140 (MQ=255)
                ttgttgATAATGTCTTTGATTGAATGTATTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGcatcatc                                                                                                                       <  1:157036/140‑1 (MQ=255)
                          tGTCTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTATGTTGTCTTTTGTTGCTTGGTCAGCTTTCTTTTCTATTTATTCTTTTATATTATTTTATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACg                                                                                                             <  1:19954/140‑1 (MQ=255)
                             cTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGt                                                                                                          <  2:179885/140‑1 (MQ=255)
                             cTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGt                                                                                                          <  2:106961/140‑1 (MQ=255)
                                     gaATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTTATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTg                                                                                                  >  2:46523/1‑140 (MQ=255)
                                         gTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGaa                                                                                              >  1:63241/1‑140 (MQ=255)
                                         gTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGaa                                                                                              >  1:130733/1‑140 (MQ=255)
                                                tttATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGACCATTATGAAAATAAACtt                                                                                       >  1:127791/1‑140 (MQ=255)
                                                          aaGTATGATCTTAAGTTGTCTTTTTTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGc                                                                             <  1:105799/140‑1 (MQ=255)
                                                                   cTTAAGTTGGCTTTTGGAGGTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTAcc                                                                    <  2:237129/140‑1 (MQ=255)
                                                                        gTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTCCGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATc                                                               >  2:79126/1‑140 (MQ=255)
                                                                                 tGTAGCTTGGTCGGTATTCTTATCTAATAACTCATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGc                                                      <  1:166972/140‑1 (MQ=255)
                                                                                          gTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTa                                             >  1:329929/1‑140 (MQ=255)
                                                                                            cAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTaaa                                           >  1:136416/1‑140 (MQ=255)
                                                                                            cAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATACTCATGTAGTATGATGCCATTCTGAGAATAAACTTCCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTaaa                                           >  2:127037/1‑140 (MQ=255)
                                                                                                aTTCTTATCTAATAACAAATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGACTAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAacac                                       <  1:106016/140‑1 (MQ=255)
                                                                                                     tATCTAATAACACATCAACATAACTTAATTCATGTTATAAGAAGTTTGCATCATCCTGTCATCCGAGCCCATTTTAAGAATAAACTTTCGCATCTCCTTGATTACCATCTCCAACAACGCCAGTTGCTAAAACACCTTcc                                  <  2:89730/140‑1 (MQ=255)
                                                                                                        cTAATAACACATCAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCAtt                               <  1:116577/140‑1 (MQ=255)
                                                                                                                    cAATATAACTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGctact                   >  1:346143/1‑140 (MQ=255)
                                                                                                                      atatAACTTAATTCATGATATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCCGTTGCTAAAACAACTACCCTTGCCGGTGCTACTaa                 >  1:246596/1‑140 (MQ=255)
                                                                                                                            cTTAATTCTTGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATAGCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCtt           <  1:260473/140‑1 (MQ=255)
                                                                                                                            cTTAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCtt           <  2:31851/140‑1 (MQ=255)
                                                                                                                             ttAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCttt          <  1:335782/140‑1 (MQ=255)
                                                                                                                              tAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCGTATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCtttt         <  1:214977/140‑1 (MQ=255)
                                                                                                                              tAATTCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCtttt         <  1:46523/140‑1 (MQ=255)
                                                                                                                               aaTTCATTTTATGAGAAGTTTGCATCATCATGTAGTTCGAGTCCTTTTTGAGAATCAACTTGCGCATCTGCTGGATTACCATATCCAACAACGCCAGTTGCCATAACACCTGCCATTGCCGTAGCTACTAAAACCtttct        <  2:199336/140‑3 (MQ=255)
                                                                                                                                 ttCATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCTTTTTaa      <  1:219711/140‑1 (MQ=255)
                                                                                                                                   cATGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCTTTTTAAAt    >  1:181741/1‑140 (MQ=255)
                                                                                                                                    aTGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCTTTTTAAAtt   <  1:245800/140‑1 (MQ=255)
                                                                                                                                     tGTTATAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACTCCTTCCATTGCTGTAGCTACTGAAACCTTTTTAAAttt  >  1:46423/1‑140 (MQ=255)
                                                                                                                                         |                                                                                                                                       
GCCGTCTTGTTTAGCTTTGTTGATAATGTCTTTGATTGAATGTAGTCCTTTATCGGCGAAGTATGATCTTAAGTTGTCTTTTGTAGCTTGGTCAGCATTCTTATCTAATAACACATCAATATAACTTAATTCATGTTCTAAGAAGTTTGCATCATCATGTAGTACGAGTCCATTTTGAGAATAAACTTTCGCATCTGCTTGATTACCATATCCAACAACGCCAGTTGCTAAAACACCTACCATTGCCGTAGCTACTAAAACCTTTTTAAATTT  >  CP000730/462877‑463149

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: