Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,429,206 T→C 7.8% L147L (TTA→TTG)  lytR_2 ← Transcriptional regulator LytR

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,429,2060TC 7.8% 189.4 / 5.1 72L147L (TTA→TTG) lytR_2Transcriptional regulator LytR
Reads supporting (aligned to +/- strand):  ref base T (32/33);  new base C (3/3);  total (35/37)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01

TCTGCTGTCCTTTTGTAAAACGAACACCATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTATTTCAGTTTTCTTCGTTTT  >  USA300TCH1516_ALE/2429067‑2429343
                                                                                                                                           |                                                                                                                                         
tCTGCTGTCCTTTTGTAAAACGAACACCATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTa                                                                                                                                          <  1:105001/141‑1 (MQ=255)
    ctgTCCTTTTGTAAAACGAACACCATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAAttt                                                                                                                                      >  1:442214/1‑141 (MQ=255)
           ttagaaaaaCGAACACCATCAACACTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGt                                                                                                                               <  2:84049/136‑1 (MQ=255)
            ttttAAACCGAACACCATCAAACGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTg                                                                                                                              <  2:95914/138‑1 (MQ=255)
            ttGTACAACGAACACCATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTg                                                                                                                              <  2:483324/141‑1 (MQ=255)
            ttGTAAAACGAACACCTTCAACAGTGAAGGGATCATTACTTCCTACGTCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATGGGCACATTCATTAATTTTTCCAGTg                                                                                                                              <  2:95984/141‑1 (MQ=255)
             tGTAAAACGAACACCATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCCTAATGATCAATTGGCACATTCATTAATTGTTCAACTGa                                                                                                                             >  2:374254/1‑141 (MQ=255)
                      aaCACCATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGc                                                                                                                    <  1:349735/141‑1 (MQ=255)
                       acacCATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGCTGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGcc                                                                                                                   >  1:146690/1‑141 (MQ=255)
                        caccacCCACAGTCAATGTATCATTACTTACTACATACCCACCGCCTATGCTCTCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATTATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCa                                                                                                                  <  2:521583/141‑1 (MQ=255)
                        cacCATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCa                                                                                                                  <  1:77413/141‑1 (MQ=255)
                          ccagacaCATTGAATGCATCATAACTTACTACATCCATCCCTCCGTGGCTATCTATCATATTATGCAAACCATCATTTTCGATTGTCGTATAATGATCAATTGGCACATTCATTAATTTTTAAAGTGATTTCACAGCCata                                                                                                                <  2:103092/135‑1 (MQ=255)
                          ccATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCata                                                                                                                <  1:167086/141‑1 (MQ=255)
                          ccATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCata                                                                                                                <  2:267265/141‑1 (MQ=255)
                           cATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCCAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCatat                                                                                                               >  1:38973/1‑141 (MQ=255)
                           cATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTACCAGCCatat                                                                                                               >  1:39144/1‑141 (MQ=255)
                           cATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCatat                                                                                                               >  1:229689/1‑141 (MQ=255)
                            aTCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATAtt                                                                                                              <  1:107651/141‑1 (MQ=255)
                            aTCAACAGTCAATTTACCATAAATTACTACATCAACTCCATCGTACCGTTGCGGCAATTTATGCAAACCACCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATAtt                                                                                                              <  1:481166/141‑1 (MQ=255)
                            aTCAACAGGGAATGTCCCATTACTTACTACCTCAACTCCGCCGATGCTATCTAGCATATTATGCAAACCATCCATATCGATTGTCCCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATAtt                                                                                                              <  1:35452/141‑1 (MQ=255)
                              cAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTg                                                                                                            >  2:5738/1‑141 (MQ=255)
                              cAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATCAATTTTTCAAGTGATTTAACAGCCATATTTg                                                                                                            >  1:393032/1‑141 (MQ=255)
                              cAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATCAATTTTTCAAGTGATTTAACAGCCATATTTg                                                                                                            >  1:392996/1‑141 (MQ=255)
                              cAACAGTGAATGTATCATTACTTACTACATCAACACCACCGCTGCTATCTATCATATTATGCACACCAACCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCACGTGATTTAACAGCGATAtttt                                                                                                            >  2:25368/1‑140 (MQ=255)
                                   gTGAATGAATCAATACTTACTACATCACCCCCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTcca                                                                                                       <  2:400462/141‑1 (MQ=255)
                                        tGTATCATTACCTACTACATCAACACCGCCGATGGTAGTAAACACAGTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTACAAGCCATATTTGGTCCTCCtta                                                                                                  <  2:467082/141‑1 (MQ=255)
                                          tATCATTACTTACTACATCAACACCGCCGAAGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATg                                                                                                <  1:204850/141‑1 (MQ=255)
                                                    tactacATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCAtg                                                                                      >  2:88374/1‑141 (MQ=255)
                                                    tactacATCAACACCGCCGATGCTATCTATCATATTAAGCAAACCAGCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCAtg                                                                                      <  2:301384/141‑1 (MQ=255)
                                                      ctacATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCAtgtg                                                                                    <  1:324008/141‑1 (MQ=255)
                                                       tacATCCACACCGTGGATGCTCTCTATGCGATTATGCATAGCATCCGTATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGc                                                                                   <  2:348105/141‑1 (MQ=255)
                                                        ccctCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCa                                                                                  <  1:387843/138‑1 (MQ=255)
                                                         cATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATCAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCaa                                                                                 <  2:393032/141‑1 (MQ=255)
                                                         cATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATCAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCaa                                                                                 <  2:392996/141‑1 (MQ=255)
                                                             accgccgccgATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGTAAtttt                                                                             <  2:209583/137‑1 (MQ=255)
                                                                cccgccgATGCTATCTATCATATTATGCAAACCATCCATATAGATTGTCGCATCATGATCAATTGGCACATTCATCAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATGTTTTc                                                                          <  2:58591/140‑1 (MQ=255)
                                                                  cgccgATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCag                                                                        >  2:614773/1‑141 (MQ=255)
                                                                        tGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTAc                                                                  >  1:314144/1‑141 (MQ=255)
                                                                         gCTATCTATCATATTATGCAAACCATCCATATCGCGTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTAcc                                                                 <  1:131874/141‑1 (MQ=255)
                                                                          ctatctatCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATTATTAAACACATTGCTCCAGTTGTTTTTTGATTTAACAGCCATATTTGGTCCACCATAAGCATAGGCGTGTGCAATTTTTTCAGTAGTAccc                                                                >  1:318932/1‑140 (MQ=255)
                                                                               tatcatatcaTGCAAACCATCCATATCGATTGTCGGATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGcc                                                           <  2:333881/141‑1 (MQ=255)
                                                                               tatcATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGcc                                                           <  2:333903/141‑1 (MQ=255)
                                                                                   atatTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCcaaca                                                       >  1:666939/1‑141 (MQ=255)
                                                                                    tattatGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGGAATTTTTTCAGTGGTACCACGGCcaacaa                                                      >  2:102467/1‑141 (MQ=255)
                                                                                    tattatGCAAACCATCCATATCGATTGTCGAATGATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACGGCGATATTTGGTACACCGTCTGCATAGCCATGTGCAATTTTTTCGTTGGTACAACGGCcagcac                                                      >  1:175481/1‑140 (MQ=255)
                                                                                      ttatGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGACACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAAtt                                                    >  2:437019/1‑141 (MQ=255)
                                                                                          gCAAACCATCCATATCGCTTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTccc                                                >  2:474037/1‑140 (MQ=255)
                                                                                            aaaCCATCCATATCGATTGTCGCATAATGGGCAATTGGCACATTCATTAATCTCTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGct                                              <  1:252469/141‑1 (MQ=255)
                                                                                            aaaCCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGct                                              >  2:343019/1‑141 (MQ=255)
                                                                                            aaaCCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGct                                              <  1:500999/141‑1 (MQ=255)
                                                                                               ccatccatATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTGGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCtt                                           >  1:603999/1‑141 (MQ=255)
                                                                                                   ccatATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTAt                                       >  1:420388/1‑141 (MQ=255)
                                                                                                   ccatATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTAt                                       >  1:232550/1‑141 (MQ=255)
                                                                                                   ccatATCGATTGTCGCATAAGGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGACCAACAATTTCCGCTCTTGTac                                       >  1:420391/1‑140 (MQ=255)
                                                                                                      tatCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCAc                                    <  1:88374/141‑1 (MQ=255)
                                                                                                       atCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCAcg                                   >  1:600996/1‑141 (MQ=255)
                                                                                                          gagtGTCGCATAACGATCAATTGGCACCTTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCAGCTTCGGTTGTATTTTTTTCAGTCGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCgg                                <  1:185769/138‑1 (MQ=255)
                                                                                                          gATTGTCGCATAATGATCAAGTGGCACATGCATGAAGTTTTCAATGGATGTAACAGCCATATTTGGGCCACCAGATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCgg                                <  1:635179/141‑1 (MQ=255)
                                                                                                           aTTGCCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCCTGTATCACGCGGt                               <  1:354430/141‑1 (MQ=255)
                                                                                                             tGTCGCATAATGATCAATTGGCACATTCCTTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTCCCGCGCTTGTATCACGCGGtat                             <  1:25368/141‑1 (MQ=255)
                                                                                                             tGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGtat                             <  1:5738/141‑1 (MQ=255)
                                                                                                                   aTAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTAtacttac                       >  2:482780/1‑141 (MQ=255)
                                                                                                                    tAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATTTGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTAtacttact                      >  1:433009/1‑141 (MQ=255)
                                                                                                                       tGATCAATTGGCACCTTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTAtt                   >  2:452396/1‑141 (MQ=255)
                                                                                                                        gATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTAttt                  >  1:442658/1‑141 (MQ=255)
                                                                                                                        gATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTAttt                  >  1:27857/1‑141 (MQ=255)
                                                                                                                          tCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCGCGGCCAACAATTTCTGGTCTTGTATCTCGCGGTTTACTTACTATTTcg                >  1:585558/1‑140 (MQ=255)
                                                                                                                          tCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTATTTCa                >  2:357042/1‑141 (MQ=255)
                                                                                                                          tCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGCGTTAGGCGGTTTACTTACTTTTTCa                >  1:585366/1‑141 (MQ=255)
                                                                                                                              ttGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTATTTCAGttt            >  1:534734/1‑141 (MQ=255)
                                                                                                                                ggCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTATTTCAGTTttc          <  2:314144/141‑1 (MQ=255)
                                                                                                                                  cacaTTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTATTTCAGTTttctt        >  1:321431/1‑141 (MQ=255)
                                                                                                                                        tattAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCCCGATTTCCATAGGCATGTGCAATTTTTTCAGTAGTACCTCGGCCAACAATTTCCGCTCTTGTATCACGTGGTATACTTACTATTTCAGTTTTCTTCGtttt  <  2:301182/140‑1 (MQ=255)
                                                                                                                                        cattAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTATTTCAGTTTTCTTCGtttt  <  1:523498/141‑1 (MQ=255)
                                                                                                                                        cattAATTTTTCAAGTGATTTAACAGCCAGATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTATTTCAGTTTTCTTCGtttt  <  2:442214/141‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                         
TCTGCTGTCCTTTTGTAAAACGAACACCATCAACAGTGAATGTATCATTACTTACTACATCAACACCGCCGATGCTATCTATCATATTATGCAAACCATCCATATCGATTGTCGCATAATGATCAATTGGCACATTCATTAATTTTTCAAGTGATTTAACAGCCATATTTGGTCCACCATATGCATAGGCATGTGCAATTTTTTCAGTAGTACCACGGCCAACAATTTCCGCTCTTGTATCACGCGGTATACTTACTATTTCAGTTTTCTTCGTTTT  >  USA300TCH1516_ALE/2429067‑2429343

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: ‑