Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,657,158 C→T 38.9% G174S (GGT→AGT)  comGA ← ComG operon protein 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,657,1580CT38.9% 27.5 / 26.1 33G174S (GGT→AGT) comGAComG operon protein 1
Reads supporting (aligned to +/- strand):  ref base C (9/11);  new base T (6/7);  total (15/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACTTGGCAACATCTTTATCTCTGATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCTTTCCTGAACCAGTTGGTCCACTAAACAATAGTAATCCTTGTT  >  USA300TCH1516_ALE/1657032‑1657295
                                                                                                                              |                                                                                                                                         
acTTGGCAACATCTTTATCTCTGATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCAtct                                                                                                                             >  1:216808/1‑141 (MQ=255)
     gCAACCTCTTTATCTCTGATTTCACCCATTAAAATCACATCAAGATCACATCTTAAAATAGCTTCAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACTCGGAATTTGCATCTCTACa                                                                                                                        <  2:359728/141‑1 (MQ=255)
     gCAACATCTTTATCTCTGATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACTAGGAATTTGCATCTCTACa                                                                                                                        <  2:323335/141‑1 (MQ=255)
     gCAACATCTTTATCTCTGATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACa                                                                                                                        <  2:290249/141‑1 (MQ=255)
      cAACATCTTTATCTCTGATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAg                                                                                                                       <  1:234230/141‑1 (MQ=255)
      cAACATCTTTATCTCTGATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCGACAg                                                                                                                       <  2:145165/141‑1 (MQ=255)
              ttATCTCTGATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCctct                                                                                                               >  2:378051/1‑141 (MQ=255)
                  ctctGATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAg                                                                                                           <  1:381834/141‑1 (MQ=255)
                   tctGATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACTAGGAATTTGCATCTCTACAGGATCCTCTATAGa                                                                                                          <  1:370672/141‑1 (MQ=255)
                      gATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACTAGGAATTTGCATCTCTACAGGATCCTCTATAGAAAt                                                                                                       >  2:133902/1‑141 (MQ=255)
                            aCCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACTAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACAtt                                                                                                 >  1:190421/1‑141 (MQ=255)
                            aCCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACAtt                                                                                                 <  2:60742/141‑1 (MQ=255)
                            aCCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACAtt                                                                                                 >  1:244043/1‑141 (MQ=255)
                                    aaaTAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACTAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCa                                                                                         >  1:172156/1‑141 (MQ=255)
                                     aaTAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGGAACCTTATATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCaa                                                                                        >  1:109890/1‑141 (MQ=255)
                                     aaTAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACTAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCaa                                                                                        >  2:168277/1‑141 (MQ=255)
                                      aTAACATCAGGATCACATTTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAg                                                                                       <  2:161710/141‑1 (MQ=255)
                                          cATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCtt                                                                                   <  1:248431/141‑1 (MQ=255)
                                               ggATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACTAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTc                                                                              <  1:218324/141‑1 (MQ=255)
                                                        cTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATgag                                                                     <  2:216808/141‑1 (MQ=255)
                                                               tAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCAttt                                                              >  2:345265/1‑141 (MQ=255)
                                                                    ttAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACTAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATAc                                                         >  1:369724/1‑141 (MQ=255)
                                                                    ttAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATAc                                                         <  2:244043/141‑1 (MQ=255)
                                                                                   tAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATCCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCttt                                          >  1:171073/1‑141 (MQ=255)
                                                                                           gCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCTTTCCTGAAcc                                  >  1:125616/1‑141 (MQ=255)
                                                                                              aGCTTTATCATTCACATTAATTTGGACGATACTAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCTTTCCTGAACCAGt                               >  1:77350/1‑141 (MQ=255)
                                                                                              aGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCTTTCCTGAACCAGt                               >  2:178637/1‑141 (MQ=255)
                                                                                               gCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCTTTCCTGAACCAGtt                              <  2:12753/141‑1 (MQ=255)
                                                                                                      cATTCACATTAATTTGGACGATACTAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCTTTCCTGAACCAGTTGGTCCAc                       <  2:172156/141‑1 (MQ=255)
                                                                                                      cATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCTTTCCTGAACCAGTTGGTCCAc                       <  2:147941/141‑1 (MQ=255)
                                                                                                       aTTCACATGAATTTGGACGATACTAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCTTTCCTGAACCAGTTGGTCCACt                      <  2:19165/141‑1 (MQ=255)
                                                                                                             aTTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCTTTCCTGAACCAGTTGGTCCACTAAACaa                >  2:201475/1‑141 (MQ=255)
                                                                                                                           tACTAGGAATTTGCATCTCTACAGGATCCTATCTTGAAATTACATTTCAATTCAAGACTTTATTCGCGTATTAGACCATTTGATACATTACTGTACTCTTTCCTGAACCAGTTGGTCCACTAAACAATAGTAATCCTTGtt  <  2:190421/141‑1 (MQ=255)
                                                                                                                              |                                                                                                                                         
ACTTGGCAACATCTTTATCTCTGATTTCACCTATTAAAATAACATCAGGATCACATCTTAAAATAGCTTTAAACGAATTTACATAGTTTATGCCAGCTTTATCATTCACATTAATTTGGACGATACCAGGAATTTGCATCTCTACAGGATCCTCTATAGAAATTACATTTAAATTCAAGGCTTTATTCGCGTATGAGACCATTTGATACATTAATGTACTCTTTCCTGAACCAGTTGGTCCACTAAACAATAGTAATCCTTGTT  >  USA300TCH1516_ALE/1657032‑1657295

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: ‑