Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,219,234 C→T 9.1% A258T (GCA→ACA)  murA1 ← UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,219,2340CT 9.1% 119.1 / 3.9 44A258T (GCA→ACA) murA1UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase 1
Reads supporting (aligned to +/- strand):  ref base C (21/19);  new base T (2/2);  total (23/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.92e-01

GATGTGGTAGAGTTTTGATGTCTACAGGTTGTAATTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGATTCTACACCATTGATTGTAATTGTGTCTGTACCAG  >  USA300TCH1516_ALE/2219099‑2219371
                                                                                                                                       |                                                                                                                                         
gacggagTAGAGTTTGGATGTTTACATGTTGTAATTGCGCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTATTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCAc                                                                                                                                      <  2:272060/135‑1 (MQ=255)
 aTGTGGTAGAGTTTTGATGTCTACAGGTTGTAATTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACg                                                                                                                                     <  1:84429/141‑1 (MQ=255)
             tttGATGTCGACAGGGTGTCATTCCGCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTGTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATc                                                                                                                         <  2:129000/141‑1 (MQ=255)
               tGATGTCTACAGGTTGTAATTCCCCTGCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATcac                                                                                                                       <  2:105533/141‑1 (MQ=255)
                   gTCTACAGGTTGTAATTCCCCTCCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGTATCACGTACAAAAATATCACCAcg                                                                                                                   <  1:67432/141‑1 (MQ=255)
                     cTACAGGTTGTATCTCCCGTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCAcgcg                                                                                                                 <  2:252377/141‑1 (MQ=255)
                     cTACAGGTTGTAATTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCAcgcg                                                                                                                 >  1:329201/1‑141 (MQ=255)
                       aCAGGTTGTAATTGCACTTCAGCTTTTATACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCCTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGtt                                                                                                               <  2:148001/141‑1 (MQ=255)
                         aGGTTGTAATTCCCCTTCAGCACGCACACGAATACCACCTTCTCGTTGGCCCAACTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTtat                                                                                                             <  1:35789/141‑1 (MQ=255)
                            ttGTAATTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGc                                                                                                          >  1:322797/1‑141 (MQ=255)
                             tGTAATTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGTTTGTATCCGGTACAACAATATCACCACGCGTTATATCa                                                                                                         >  2:67432/1‑141 (MQ=255)
                             tGTAATTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGTATCACGTACAAAAATATCACCAcg                                                                                                                   <  1:67351/131‑1 (MQ=255)
                             tGTAATTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGTATCACGTACAAAAATATCACCAcg                                                                                                                   >  2:67351/1‑131 (MQ=255)
                               tAATTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCAcc                                                                                                       >  2:240185/1‑141 (MQ=255)
                                aaTTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCa                                                                                                      <  1:76285/141‑1 (MQ=255)
                                 aTTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCCCGCGTTATAGCACCAg                                                                                                     >  2:378874/1‑141 (MQ=255)
                                  ttCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGc                                                                                                    <  2:399750/141‑1 (MQ=255)
                                         tCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGt                                                                                             >  2:175975/1‑141 (MQ=255)
                                              aCGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCATTATAGCACCAGCGATTAATAAtgt                                                                                        >  2:128115/1‑141 (MQ=255)
                                                atACACGTATACCATCTTCTTGATATTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGc                                                                                      <  2:215768/140‑1 (MQ=255)
                                                       aaTACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAACTATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTc                                                                               >  1:115798/1‑141 (MQ=255)
                                                        aTACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCa                                                                              <  1:152/141‑1 (MQ=255)
                                                         tACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGAGTAGTAATGTGCCTGCTTCaa                                                                             >  1:52766/1‑141 (MQ=255)
                                                           ccATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTGCAAtt                                                                           >  2:331145/1‑141 (MQ=255)
                                                            cATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTc                                                                          <  2:226910/141‑1 (MQ=255)
                                                               cttcttGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTAt                                                                       <  1:392383/141‑1 (MQ=255)
                                                                         ttCCAACTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGAt                                                             <  2:421288/140‑1 (MQ=255)
                                                                           ccAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAg                                                           >  2:19494/1‑141 (MQ=255)
                                                                                   aCGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACCAAAATAACAAAACGCGTTATAGCACCAGCGCTTAGTCATGTGCCTGCTTCACTTCTATATTGAATGATAGCATGttgt                                                   >  2:297831/1‑139 (MQ=255)
                                                                                   aCGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCt                                                   >  1:318422/1‑141 (MQ=255)
                                                                                         aTTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGCATGATAGCATGTTCTACAcct                                             >  2:261296/1‑140 (MQ=255)
                                                                                         aTTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCa                                             >  2:261516/1‑141 (MQ=255)
                                                                                                 tAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGa                                     >  2:348970/1‑141 (MQ=255)
                                                                                                   gTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAACGTGCCTGCTTCAATTCTATCTGGCATGATGGCATGTTCCACACCATGTACTGact                                   >  2:243709/1‑139 (MQ=255)
                                                                                                      tataGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGATTCTa                                >  2:267172/1‑141 (MQ=255)
                                                                                                        taGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGATTCTaca                              <  1:272816/141‑1 (MQ=255)
                                                                                                          gACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATTTACTACACCTTTTAATGATTATAcccc                            >  2:228691/1‑141 (MQ=255)
                                                                                                              aaaCTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGATTCTACACCattg                        <  1:175975/141‑1 (MQ=255)
                                                                                                                aCTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATGGCATGTTCTACACCATGTAATGATTCTACACCattgat                      >  1:218248/1‑141 (MQ=255)
                                                                                                                             tgtttGATTGCATCACGTAAAAGAATATCATCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGATTCTACACCATTGATTGTAATTGTGTCt         <  2:380078/139‑1 (MQ=255)
                                                                                                                               tttGATTGCATCACGTACACAAATATCGCCACGCTTTATAGCACTGGTGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGATTCTACACCATTGATTGTAATTGTGTCTGt       <  2:177064/141‑1 (MQ=255)
                                                                                                                                ttgattgaATAACGAAGAAAAATATCACCACGCGTTATATCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGATTCTAAACCATTACTTTTAATTCTGTcacta      >  2:370184/1‑137 (MQ=255)
                                                                                                                                ttGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGATTCTACACAATTGATTGTAATTGTGTCTGTa      >  1:17440/1‑141 (MQ=255)
                                                                                                                                   agtGCAGCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATGAAGTTTTGTATCATGTTCTCCACCATGTAATGATTCTACACCATTGATTGTAATTGTGTCTGTACCa   <  2:258210/139‑1 (MQ=255)
                                                                                                                                    ttGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGATTCTACACCATTGATTGTAATTGTGTCTGTACCAg  >  1:354966/1‑141 (MQ=255)
                                                                                                                                       |                                                                                                                                         
GATGTGGTAGAGTTTTGATGTCTACAGGTTGTAATTCCCCTTCAGCACGTACACGAATACCATCTTCTTGATAGTCCAATTCAACGCCCATTTCTTCTAGTTTATAGACTAAACTCGCCATATGTTCTTTGATTGCATCACGTACAAAAATATCACCACGCGTTATAGCACCAGCGATTAGTAATGTGCCTGCTTCAATTCTATCTGGAATGATAGCATGTTCTACACCATGTAATGATTCTACACCATTGATTGTAATTGTGTCTGTACCAG  >  USA300TCH1516_ALE/2219099‑2219371

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: ‑