Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,775,053 A→G 13.5% D711D (GAT→GAC)  clfB ← Clumping factor B

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,775,0530AG13.5% 162.6 / 2.1 74D711D (GAT→GAC) clfBClumping factor B
Reads supporting (aligned to +/- strand):  ref base A (27/34);  new base G (5/6);  total (33/41)
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

AATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGT  >  USA300TCH1516_ALE/2774914‑2775192
                                                                                                                                           |                                                                                                                                           
cctcGCTGTCTGAGTCTGTTTCGCTTTCTGATTCTGCGTCGCTCTCGGTGTCTGAGTCGCTATCTGAATCTGAGTCGCTCTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctgaa                                                                                                                                             <  2:466049/138‑1 (MQ=14)
     cTGTCTAAGTCTGAATCGCTATCATAAGCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTatctgaatctga                                                                                                                                        <  1:76426/140‑1 (MQ=14)
        tCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTc                                                                                                                                     <  1:337465/140‑1 (MQ=255)
        tCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATAGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGGGTCGGAATCGGTAGCTGAATCTGAGTc                                                                                                                                     >  2:286414/1‑140 (MQ=17)
        gcTGAGTCCGAAGCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTc                                                                                                                                     <  1:55184/139‑1 (MQ=255)
          tGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGc                                                                                                                                   <  1:281799/140‑1 (MQ=255)
             gTCCGATTCGCTTTCTGAATGTGGGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCCCTATCCGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgt                                                                                                                                <  2:543473/140‑1 (MQ=14)
              tCCGAATCGCTATCTGAATCGGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtc                                                                                                                               <  1:64777/140‑1 (MQ=255)
                 gAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCGGAATCGCTGTCTGAATCGGAGTCGCTacctga                                                                                                                            >  2:561522/1‑140 (MQ=14)
                      ggtgtctgagtcgggGTGGCTGTCCGGGTCTGAGTCGCTTTCTGGGTCTGAGTCGCTATCTGAGTCTGAGTCGCTTTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTgtctgagtctg                                                                                                                       <  2:357937/136‑1 (MQ=14)
                       cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTCTCTGATTCTGCTTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGACTCTGATTCGCTgtcagagtctgc                                                                                                                      >  2:451863/1‑139 (MQ=14)
                        tATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGGATCTGAGTCGCTGtcggggtctgag                                                                                                                     >  2:140915/1‑140 (MQ=14)
                                 ctgaGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGTGGCTGCGGCTTAGGCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtct                                                                                                            <  1:131354/140‑1 (MQ=17)
                                    actCGCTGTCTGATTCTGACTCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaa                                                                                                         <  2:150566/138‑1 (MQ=255)
                                     gTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaat                                                                                                        >  1:310378/1‑140 (MQ=255)
                                          tGTCTGAGTCTGACTCGCTATCTGTATCTGAGTCGCTCTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgag                                                                                                   <  2:19067/140‑1 (MQ=255)
                                          tGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgag                                                                                                   <  1:110483/140‑1 (MQ=255)
                                          tGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgag                                                                                                   <  1:378072/140‑1 (MQ=255)
                                            tctgagtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGACTCGCAATCCTAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgactctgggtc                                                                                                 >  1:242010/1‑140 (MQ=17)
                                            tctgagtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTCTCTGAGTCTGAGTCGCTGTCTGAAtctgaatcgctctctgaatctgactc                                                                                                 >  2:499845/1‑140 (MQ=14)
                                             ctcagtctgaGCCGCTATCTGCATCTCAGCCGCTATCCGGGTCCGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcg                                                                                                <  2:264731/137‑1 (MQ=14)
                                                 gtctgaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgt                                                                                            >  1:72742/1‑140 (MQ=255)
                                                     gaATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtatgagtcgctgtctgaatctgagtcgccgtctga                                                                                        >  1:239009/1‑140 (MQ=255)
                                                     gaAACGCTAGCTGAAACCGAGCCGCTATCAGAGTCTGAGTCGCTGTCGGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGtctgagtcgctgtctgaatctgagtcgctgtctga                                                                                        <  1:153525/140‑1 (MQ=17)
                                                           cTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAgtcgctgtctgaatctcagccgctctccgcatctga                                                                                  >  1:491833/1‑140 (MQ=14)
                                                           cTATCTGAAGCGGAGTCGCTATCTGAGGCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAgtcgctgtctgaatctgagtcgctgtctgaatctga                                                                                  <  1:6151/140‑1 (MQ=255)
                                                              tctgaatctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCtgagtctgaatc                                                                               >  1:415420/1‑140 (MQ=255)
                                                                  aagcggggTCCCTATCTGCGTCCGAGTCGCTGTCTGAGCCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTg                                                                           <  2:273115/133‑1 (MQ=14)
                                                                    tctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtc                                                                         >  1:298604/1‑140 (MQ=255)
                                                                    tctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtc                                                                         <  1:550088/140‑1 (MQ=255)
                                                                       gaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGGATCGCTATCTGAGTCTGAGTCGCTTTCTGGGTCTGAGTCGCTGTCTGAAGCTGAGTCGCTGTCTGAATAGGGAACGCGgtctga                                                                      >  2:28557/1‑140 (MQ=14)
                                                                        actCGCTGTCTGAGTCTGAGTCGCTTTCGGAGGCTGAGTCGCTGTCTTAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgag                                                                     <  2:395431/138‑1 (MQ=14)
                                                                        aGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgag                                                                     <  1:286414/140‑1 (MQ=255)
                                                                         gTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagt                                                                    >  1:313419/1‑140 (MQ=255)
                                                                         gTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagt                                                                    <  1:158896/140‑1 (MQ=255)
                                                                         gTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagt                                                                    <  1:538884/140‑1 (MQ=255)
                                                                         gTCGCTATCGGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagt                                                                    <  1:256795/140‑1 (MQ=255)
                                                                          tCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCCGAATCTGAATCGCTggctgagtc                                                                   >  1:536034/1‑140 (MQ=255)
                                                                             ctgtctgcgtctgagtcgctatctggctctgactctctgTCTGACTCTGAATCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtctga                                                                <  2:356773/137‑1 (MQ=11)
                                                                             cTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTgtctgagtctga                                                                <  1:134071/140‑1 (MQ=255)
                                                                                tctgagtctgagtcgctgtctgagtctgagtcgctgTCTGAGTCTGAATCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAgtcgctgtctgagtctgagtcgctgtctgagtctgagtg                                                             >  2:539492/1‑137 (MQ=255)
                                                                                 ctgagtctgagtcgctgtctgagtctgagtcgctgtCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGACTCTGAATCGCTGtctgcgtctgaatcg                                                            >  1:193386/1‑140 (MQ=255)
                                                                                 ctgagtctgagtcgctgtctgagtctgagtcgctgtCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgattctgaatcg                                                            >  1:193356/1‑140 (MQ=255)
                                                                                 ctgaggctgagtcgctgtctgagtctgagtcgctgtCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcg                                                            <  1:228307/140‑1 (MQ=255)
                                                                                  tgagtctgagtcgctgtctgaggctgagtcgctgtcTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgc                                                           <  1:431508/140‑1 (MQ=255)
                                                                                   gatcctgagtcgacgtcggcttctgagtcgctgtctgattCTGAGTCGCATTCTGAGTCTGAGTCGCTGTCTTAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGGCTGAACCTGAATCGCTGtctgagtctgaatcgct                                                          <  2:72742/136‑1 (MQ=14)
                                                                                   gagtctgagtcgctgtctgagtctgagtcgctgtctGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGACTCTGAGTCGCTGTCTGAATCTGAATCGCTGtcttagtcttaatcgct                                                          >  1:153180/1‑140 (MQ=255)
                                                                                   gagtctgaggcgctgtctgagtctgagtcgctgtctGAGTCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgct                                                          <  2:508483/140‑1 (MQ=255)
                                                                                     gtctgagtcgctgtctgagtctgagtcgctgtctgaGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTCAGTCGCTGTGTGAATCTGACTCGCTGtctgagtctgaatcgctgt                                                        >  2:545186/1‑138 (MQ=255)
                                                                                        tgagtcgctgtctgagtctgagtcgctgtctgagtcTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctg                                                     >  1:149894/1‑140 (MQ=255)
                                                                                         gagtcgctgtctgagtctgagtcgctgtctgagtctGAATCGCTATCTGAATCTGAGTCGCTGTCTGGGTCTGAGTCGCTGTCTGAAGCTGAGTCCCTGTCTGACTCTGAATCGCTGtctgggtctgactcgctctctgg                                                    >  2:64574/1‑139 (MQ=17)
                                                                                         gagtcgctgtctgagtctgagtcgctgtctgagtctGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctga                                                    >  1:470599/1‑140 (MQ=255)
                                                                                           gtcgctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGCGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGtctgagtctgactccctctctgcat                                                  >  2:284026/1‑137 (MQ=14)
                                                                                            tcgctggctgagtctgagtcgttgtctgaggctgaGTCGCTCTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTATCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtc                                                 <  2:355002/140‑1 (MQ=14)
                                                                                              gctgtctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGGCTGAGTCTGAGTCGCTGtctgagtctgactcggtagctgagtctg                                               >  2:260277/1‑140 (MQ=14)
                                                                                                  tctgagtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatc                                           >  1:330733/1‑140 (MQ=255)
                                                                                                     gaatctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTGtctgagtctgaatcgctatctgagtctgagtcgct                                        >  2:307587/4‑140 (MQ=255)
                                                                                                      catctgtgtcgctgtccgagtctgaGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCGGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAATCTGAATCGCTGtctgagtctgaatcgctatctgagtctgaatcgcta                                       <  2:325469/138‑1 (MQ=11)
                                                                                                       gtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTctgagtctgaatcgctatctgagtctgaatcgctat                                      <  1:358538/140‑1 (MQ=255)
                                                                                                       gtctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTctgagtctgaatcgctatctgagtctgaatcgctat                                      <  1:472656/140‑1 (MQ=255)
                                                                                                         ctgagtcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTgagtctgaatcgctatctgagtctgaatcgctatct                                    <  1:465251/140‑1 (MQ=255)
                                                                                                              tcgctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCtgaatcgctatctgagtctgaatcgctatctgagtc                               >  1:37588/1‑140 (MQ=255)
                                                                                                                 ctgtctgagtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAatcgctatctgagtctgaatcgctatctgagtctga                            <  1:295179/140‑1 (MQ=255)
                                                                                                                     cggagtctgaATCGCTCTCTGACTCCGAGTCGCTGTCTGAGTCTGAGCCGCTGTCCGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCa                        <  2:326404/138‑1 (MQ=14)
                                                                                                                        agtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTg                     >  1:260068/1‑140 (MQ=255)
                                                                                                                        agtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTAGCTGTATGAACAAAAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATTTGAGTGTGAATGACTg                     >  1:360794/1‑140 (MQ=18)
                                                                                                                         gtctgaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGt                    <  1:9236/140‑1 (MQ=255)
                                                                                                                          tctgaGTCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTc                   <  1:195816/140‑1 (MQ=255)
                                                                                                                          tccgaATCGCTATCTGGAGCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTc                   <  1:171524/137‑1 (MQ=255)
                                                                                                                            cgaATCGCTATCTGAATCTGAGGCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTg                 <  1:250108/139‑1 (MQ=255)
                                                                                                                             gaATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCGTAGTATGAATTACTGTCTgc                >  1:190356/1‑139 (MQ=255)
                                                                                                                               gtCGTTATCTGAAGCTGGGTCGCTCTCGGAGTGTGAGTTGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTGTCTGAGTCTGAGTCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGt              <  2:257300/139‑1 (MQ=14)
                                                                                                                                tCGCTATCCGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTc             <  1:346079/140‑1 (MQ=255)
                                                                                                                                  gCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGCGTCTGAATCGCTATCTGCGTCTGAATCGCTATCTGAGTCTGACTCACTGTCTGAGTCCg           >  1:154232/1‑140 (MQ=255)
                                                                                                                                   cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGa          >  1:248609/1‑140 (MQ=255)
                                                                                                                                   cTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGa          <  1:561522/140‑1 (MQ=255)
                                                                                                                                     atctgaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGt        <  1:55317/140‑1 (MQ=255)
                                                                                                                                        tgaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCAc     <  1:323754/140‑1 (MQ=255)
                                                                                                                                        tgaatctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCAc     <  1:200447/140‑1 (MQ=255)
                                                                                                                                        tgaatccgaGTCGCTGTCTGAGTCTGGGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCAc     <  2:290602/140‑1 (MQ=255)
                                                                                                                                           atctgaGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGACTCGCCCGCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGt  >  1:537951/1‑140 (MQ=255)
                                                                                                                                           |                                                                                                                                           
AATCGCTGTCTGAGTCCGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTATCTGAGTCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAGTCTGAATCGCTATCTGAATCTGAGTCGCTGTCTGAGTCTGAGTCGCTGTCTGAATCTGAGTCGCTGTCTGAATCTGAATCGCTGTCTGAGTCTGAATCGCTATCTGAGTCTGAATCGCTATCTGAGTCTGAATCACTGTCTGAGTCCGAGTCACTGT  >  USA300TCH1516_ALE/2774914‑2775192

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑