Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,372,863 C→G 35.1% G305R (GGA→CGA)  pbuG ← Guanine/hypoxanthine permease PbuG

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,372,8630CG35.1% 27.8 / 41.8 40G305R (GGA→CGA) pbuGGuanine/hypoxanthine permease PbuG
Reads supporting (aligned to +/- strand):  ref base C (14/12);  new base G (9/5);  total (23/17)
Fisher's exact test for biased strand distribution p-value = 7.39e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.68e-01

GATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCAGCTGTATCAAAGAAATCAATAAATAAGAAC  >  USA300TCH1516_ALE/2372726‑2372996
                                                                                                                                         |                                                                                                                                     
gATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTa                                                                                                                                     <  2:337713/140‑1 (MQ=255)
   tAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTCACGATACTAGCAAATCCGGTTCTAGCACCTACAGCAACACCTGACGTTGATTCGATATAAGAAGTTGTTGTAGTAGTTCCAAAAACTGATACTCCac                                                                                                                                  >  2:26013/1‑139 (MQ=255)
    aaCGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAAt                                                                                                                                 >  2:107934/1‑140 (MQ=255)
     aCGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCGTACAATc                                                                                                                                <  1:179625/140‑1 (MQ=255)
          cTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTTATCCTACAATCGTAGc                                                                                                                           >  2:40999/1‑140 (MQ=255)
             aaGAACACCGCTAATAAGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTaa                                                                                                                        <  1:227015/140‑1 (MQ=255)
                 aCAGGGCTAAGAGGAAACAAGAACCTGTTACGATACTAGCAAATCCTGTTCTCGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGaa                                                                                                                    <  2:104880/140‑1 (MQ=255)
                    gcgcTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCt                                                                                                                 >  2:332020/1‑140 (MQ=255)
                     cgcAAATAGCAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTACCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTg                                                                                                                <  2:96606/140‑1 (MQ=255)
                         aaTAGGAAACAACAACATGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGaa                                                                                                            >  2:77412/1‑140 (MQ=255)
                                 acaacaacCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGctc                                                                                                    >  1:296170/1‑140 (MQ=255)
                                    tcaacCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTGGTTGTAGTTGTTCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTAc                                                                                                 <  2:152878/139‑1 (MQ=255)
                                      aacCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTCGCTAAAGAATCTGAGAACAATGCTCTACCa                                                                                               >  1:331450/1‑140 (MQ=255)
                                      aacCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCa                                                                                               >  2:74670/1‑140 (MQ=255)
                                       acCTGTTACGATACTAGCAGATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAg                                                                                              >  1:213402/1‑140 (MQ=255)
                                        ccTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGc                                                                                             >  2:114188/1‑140 (MQ=255)
                                                              cTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTc                                                                       >  1:108608/1‑140 (MQ=255)
                                                               tGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTACTATCTTTCa                                                                      <  1:261938/140‑1 (MQ=255)
                                                                gTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCat                                                                     >  1:216620/1‑140 (MQ=255)
                                                                gTTCTAGCACCTACAGCAACACCTGAAGTTGATGCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCat                                                                     >  1:71683/1‑140 (MQ=255)
                                                                    tttccccTACAGCAACTCCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAATAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCataata                                                                 <  1:80296/135‑1 (MQ=255)
                                                                       cACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGGTGTTGTAGTTGTTCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTCCCAGCTCGTGCTAATGTGTTCTCTTTCATAATACCt                                                              >  1:342411/1‑140 (MQ=255)
                                                                        aCCTACAGCAACACCTGAAGTTGAGTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCGCTTGGTAATTTATTATCTTTCATAATACCTg                                                             <  2:164834/140‑1 (MQ=255)
                                                                            aCAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTg                                                         >  1:150285/1‑140 (MQ=255)
                                                                            aCAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAATTAATCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTg                                                         >  1:187771/1‑140 (MQ=255)
                                                                               gCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGt                                                      >  1:141630/1‑140 (MQ=255)
                                                                                          aGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGcta                                           <  1:107934/140‑1 (MQ=255)
                                                                                                 tCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTCCTCATGt                                    >  2:88020/1‑140 (MQ=255)
                                                                                                     tataAGAAGTTGTTGTAGTTGTTCCAAAAACTGATTGTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAATAGCTACTAATGTACCa                                <  1:197628/140‑1 (MQ=255)
                                                                                                     tataAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCa                                >  2:90025/1‑140 (MQ=255)
                                                                                                       taAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCAGc                              <  1:77412/140‑1 (MQ=255)
                                                                                                             gttgttGTAGTTGTTCCAAAATCTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCAGCTGTATc                        <  1:327290/140‑1 (MQ=255)
                                                                                                             gttgttGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCAGCTGTATc                        >  2:9673/1‑140 (MQ=255)
                                                                                                             ctttttgtAGTTGTTCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGAACAATGCGCTACCAGCTCTTGGGAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCAGCTGTATc                        <  2:149092/136‑1 (MQ=255)
                                                                                                                   gtAGTTGTTCCAAAAACTGATCGTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCGCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCACCAGGTACTAATCTACCAGCGGTATCAAAGaa                  >  2:80271/1‑140 (MQ=255)
                                                                                                                             cAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCAGCTGTATCAAAGAAATCaataaat        <  1:181244/140‑1 (MQ=255)
                                                                                                                               aaaaCTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCAGCTGTATCAAAGAAATCAataaataa      <  1:74670/140‑1 (MQ=255)
                                                                                                                                 aaCTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCAGCTGTATCAAAGAAATCAATAAATAAGa    <  2:296170/140‑1 (MQ=255)
                                                                                                                                   cTGATCGTACAATCGCAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCAGCTGTGTTAAAGAGATCAATAAATAAGAAc  >  1:264134/1‑140 (MQ=255)
                                                                                                                                   cTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTCCCAGCTCTAGGTAATTAATTATCTTTCATAATACCAGCTTGAGTACCATCAGCTACTAATGTACCAGCTGTATCAAAGAAATCAATAAATACGaaa  >  2:87503/1‑139 (MQ=255)
                                                                                                                                         |                                                                                                                                     
GATTAACGGACTAAAGAACAGCGCTAATAGGAAACAACAACCTGTTACGATACTAGCAAATCCTGTTCTAGCACCTACAGCAACACCTGAAGTTGATTCGATATAAGAAGTTGTTGTAGTTGTTCCAAAAACTGATCCTACAATCGTAGCTAAAGAATCTGAGAACAATGCTCTACCAGCTCTTGGTAATTTATTATCTTTCATAATACCTGCTTGAGTAGCAACAGCTACTAATGTACCAGCTGTATCAAAGAAATCAATAAATAAGAAC  >  USA300TCH1516_ALE/2372726‑2372996

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑