Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,017,678 T→C 59.6% F391S (TTC→TCC)  USA300HOU_0971 → AGCS family alanine or glycine:sodium (Na+) or proton (H+) symporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,017,6780TC59.6% 11.1 / 20.2 24F391S (TTC→TCC) USA300HOU_0971AGCS family alanine or glycine:sodium (Na+) or proton (H+) symporter
Reads supporting (aligned to +/- strand):  ref base T (4/5);  new base C (5/9);  total (9/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.29e-01

ATGCAACAGGTAAAGATTATTCAGGTACTGCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACATTTTAC  >  CP000730/1017540‑1017817
                                                                                                                                          |                                                                                                                                           
aTGCAACAGGT‑AAGATTATTCAGGTACTGCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTcttctt                                                                                                                                          <  1:142089/141‑1 (MQ=255)
              gATTATTCAGGTACTGCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACa                                                                                                                             >  2:58493/1‑141 (MQ=255)
                   ttCAGGTACTGCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAAtttt                                                                                                                        <  1:23444/141‑1 (MQ=255)
                   ttCAGGTACTGCGATGGATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAAtttt                                                                                                                        <  1:299174/141‑1 (MQ=255)
                       ggTACTGCGATGTATGCACGAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCg                                                                                                                    >  1:237205/1‑141 (MQ=255)
                             gCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGtactac                                                                                                              <  2:39750/141‑1 (MQ=255)
                                    aTGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACACTTTTGTCGTCCTACTACATTa                                                                                                       >  1:35230/1‑141 (MQ=255)
                                                 cATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGt                                                                                          >  1:331799/1‑141 (MQ=255)
                                                 cATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGt                                                                                          <  1:369870/141‑1 (MQ=255)
                                                            ggTTCCTTGGTCGTGTTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACCAATGTTGCTTATTTaa                                                                               <  2:321480/140‑1 (MQ=255)
                                                            cGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTaa                                                                               <  1:39065/141‑1 (MQ=255)
                                                            cGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTaa                                                                               <  2:375050/141‑1 (MQ=255)
                                                                ccATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAAcgcg                                                                           >  2:17877/1‑141 (MQ=255)
                                                                 cATGGTAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGt                                                                          <  2:214915/141‑1 (MQ=255)
                                                                                    ttGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGttt                                                       >  2:101260/1‑141 (MQ=255)
                                                                                                 ctctGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGAtatttat                                          <  1:117282/141‑1 (MQ=255)
                                                                                                  tctGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGAtatttatt                                         <  1:101260/141‑1 (MQ=255)
                                                                                                          aGGTTCGTACTTTATTGCATTTGCTTTATTCTGCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGGTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGc                                 <  1:264304/141‑1 (MQ=255)
                                                                                                          aGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTAAACTTGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGc                                 <  1:271435/141‑1 (MQ=255)
                                                                                                                   cTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGAATTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGat                        <  1:74592/141‑1 (MQ=255)
                                                                                                                     ttATTTCATTTTCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGAACCACTACATTACAGAAACAAATGTTACTTATTTAACTCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGatta                      <  2:16040/141‑1 (MQ=255)
                                                                                                                     tgaTTGCATTTGCTTGATTCTCCTTTGCATTTACTATAATTTTGTCGTACTACTAAATTACACAAACAAATGTTGCTTATTTCACGCGTAATCAAAATAATCAAGTTTCATTGATATTTATTAATATTGCTCGTGTGatta                      <  2:29421/139‑1 (MQ=255)
                                                                                                                            aTTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGTCCGTGTGATTATTTTGtt               >  2:306955/1‑141 (MQ=255)
                                                                                                                                    tATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACAt       >  2:172608/1‑141 (MQ=255)
                                                                                                                                    tATTCTCCTTTGCATTTACTAAAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACAt       >  1:335304/1‑141 (MQ=255)
                                                                                                                                      ttctccTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACAttt     <  1:17877/141‑1 (MQ=255)
                                                                                                                                       tctcctGTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGTTTTTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACAtttt    <  1:13300/141‑1 (MQ=255)
                                                                                                                                         ttcttTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACATTTTAc  <  2:183090/141‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                           
ATGCAACAGGTAAAGATTATTCAGGTACTGCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACATTTTAC  >  CP000730/1017540‑1017817

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑