Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,944,209 Δ1 bp 5.3% coding (211/708 nt) splA ← Serine protease SplA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,944,2090T. 5.3% 216.9 / 6.7 75coding (211/708 nt)splASerine protease SplA
Reads supporting (aligned to +/- strand):  ref base T (28/43);  new base . (2/2);  total (30/45)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.34e-01

AACTATCGCAAGGTCTTCTTTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAGGCTGATTAGAAATAT  >  USA300TCH1516_ALE/1944069‑1944349
                                                                                                                                             |                                                                                                                                             
aacTATCGCAAGGTCTTCTTTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTCGCGATATGTTTgttagt                                                                                                                                               >  1:763577/1‑141 (MQ=255)
aacTATCGCAAGGTCTTCTTTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTgttagt                                                                                                                                               >  1:429326/1‑141 (MQ=255)
 acTATCGCAAGGTCTTCTTTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTgttagtt                                                                                                                                              >  1:668958/1‑141 (MQ=255)
 acTATCGCAAGGTCTTCTTTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTgttagtt                                                                                                                                              >  1:406649/1‑141 (MQ=255)
  cTATCGCAAGGTCTTCTTTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTCTTTTTAAAAATATCATTACTATTAGCGATATGTTTtttagtta                                                                                                                                             >  2:250803/1‑141 (MQ=255)
   tATCGCAAGGTCTTCTTTTCCGGGGTATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTTCTGTTACTCTATTTTTAAAAATATCATTACTTTTAGCGATCTGTTTGTTAGTTAc                                                                                                                                            >  1:560987/1‑141 (MQ=255)
     tCGCACTGTCTTCTTTTTAGGGATAATCTACAATGTTTTTAACGTCGTAGGTTCCTCCGCGTTTACCT‑TTAATCGAATTATGTGCTCATTCTCTATTTTTAAAAATATCGTTACTTTTAGCGATATGTTTTTTAGTTACGa                                                                                                                                          <  2:45499/141‑1 (MQ=255)
     tCGCAAGGTCTTCTTTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGa                                                                                                                                          >  2:174509/1‑141 (MQ=255)
       gCAAGGTCTTCTTGTCCGGGACATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAAAGATGCATTTATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGAtt                                                                                                                                        <  2:10237/141‑1 (MQ=255)
        cAAGGTCTTCTTTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTg                                                                                                                                       <  1:671800/141‑1 (MQ=255)
              ctgcgttttCGGGATATTCTATACTGTCTTTAACTTCGTAGTTTCCTCCGCCTTTTCCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTAtttt                                                                                                                                 <  2:394357/136‑1 (MQ=255)
               ttcttTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACAT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTAttttt                                                                                                                                <  2:695851/141‑1 (MQ=255)
                tcttTTCTGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTa                                                                                                                               <  2:749754/141‑1 (MQ=255)
                 cttTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTAc                                                                                                                              >  2:99537/1‑141 (MQ=255)
                    ttCCGGGATATTCTACAATGTCTTTAGCGTCCTATCTACCTCC‑CAGTTGCATCGTGCGCTAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACcaa                                                                                                                           <  1:178443/141‑1 (MQ=255)
                    ttCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACcaa                                                                                                                           >  1:749621/1‑141 (MQ=255)
                    ttCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACcaa                                                                                                                           <  1:493756/141‑1 (MQ=255)
                      ccgtgctatTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTTATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACcaaca                                                                                                                         <  2:60291/135‑1 (MQ=255)
                      ccGGGATATTCTACAATGTCTTTAACGTCGTAGTTTTCTCTGGCTTTACCT‑TTACTCGAATGATGTGCTGATGCTCTATTTTTAATAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACcaaca                                                                                                                         <  2:64077/141‑1 (MQ=255)
                         ggATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACt                                                                                                                      <  1:349529/141‑1 (MQ=255)
                         ggATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACt                                                                                                                      <  1:560059/141‑1 (MQ=255)
                             atTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTacac                                                                                                                  <  2:27427/141‑1 (MQ=255)
                               tCTACAATGTCTGTAACGTCGTAGTTTTCTCCGCCTTTATCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCa                                                                                                                <  2:642916/141‑1 (MQ=255)
                                cTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGCTGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGCTATGTTTGTTAGTTACGATTGTATTTTTACCACCAACTACACCAg                                                                                                               >  1:99907/1‑141 (MQ=255)
                                cTACAATGTCCTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTATTTACGATTGTATTTTTACCAACAACTACACCAg                                                                                                               >  2:421367/1‑141 (MQ=255)
                                       gTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTaccacc                                                                                                        <  1:644751/141‑1 (MQ=255)
                                          tttAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTCCCAACAACTACACCAGTAccacccac                                                                                                     >  1:214857/1‑141 (MQ=255)
                                            tAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACaa                                                                                                   >  1:471913/1‑141 (MQ=255)
                                                 tcgtAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑Ct                                                                                             <  1:711712/141‑1 (MQ=255)
                                                 tcgtAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑Ct                                                                                             >  1:486196/1‑141 (MQ=255)
                                                 tcgtAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑Ct                                                                                             >  1:232383/1‑141 (MQ=255)
                                                 tcgtAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAG‑TACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTa                                                                                            >  1:698448/1‑141 (MQ=255)
                                                 tcgtAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAACATCATGACTTTTAGCGATATGTTTGTTAG‑TACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTa                                                                                            >  1:699377/1‑141 (MQ=255)
                                                     aGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCa                                                                                         >  1:172146/1‑141 (MQ=255)
                                                      gTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCAc                                                                                        <  1:585592/141‑1 (MQ=255)
                                                         tcctccGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGa                                                                                     <  2:332420/141‑1 (MQ=255)
                                                            tccGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAAtt                                                                                  >  2:712409/1‑141 (MQ=255)
                                                            cccGCCTTTACCT‑TTACTCTAAGGATGTGCTGATACTCTATTTTTAAACATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAAtt                                                                                  <  1:541269/140‑1 (MQ=255)
                                                             ccGTCTTGAGCT‑TTTTTCTAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTg                                                                                 <  2:344894/141‑1 (MQ=255)
                                                             ccGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTg                                                                                 <  1:110906/141‑1 (MQ=255)
                                                             ccGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTCTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTg                                                                                 <  1:111041/141‑1 (MQ=255)
                                                                     acct‑ttacTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCCCTGAATTGTATGGTTc                                                                         >  2:571452/1‑141 (MQ=255)
                                                                     acct‑ttacTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGACTTGTATGGTTc                                                                         >  2:32482/1‑141 (MQ=255)
                                                                     acct‑ttacTCGAATGATATGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTc                                                                         >  1:702872/1‑141 (MQ=255)
                                                                           tacTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAg                                                                    <  1:329138/141‑1 (MQ=255)
                                                                           tacTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAg                                                                    >  1:316400/1‑141 (MQ=255)
                                                                               cGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGc                                                                >  1:326898/1‑141 (MQ=255)
                                                                                gatgtgtgtgCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCa                                                               <  1:250803/135‑1 (MQ=255)
                                                                                 aaTGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCAt                                                              >  2:183322/1‑141 (MQ=255)
                                                                                  atgatgTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTAAATTGTATGGTTCCTTAGTTGCATc                                                             >  2:102390/1‑141 (MQ=255)
                                                                                   tgatgTGTTTATACCCAATAATTAGAAGTTGCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCATTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCg                                                            <  2:469192/141‑1 (MQ=255)
                                                                                   tgatgTGCTGATTCTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCg                                                            <  2:517060/141‑1 (MQ=255)
                                                                                     gtgtgCTGATACTCTATTTTTAAAAATATCATTACTTGTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGt                                                          <  2:99907/140‑1 (MQ=255)
                                                                                     atgTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGt                                                          <  1:174509/141‑1 (MQ=255)
                                                                                     atgTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGt                                                          >  1:461069/1‑141 (MQ=255)
                                                                                     atgTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGt                                                          >  1:664765/1‑141 (MQ=255)
                                                                                     atgTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGCTTCCTTACTTACATCTGt                                                          >  2:606232/1‑141 (MQ=255)
                                                                                       gtgCTGATACTCTATTTGTAATAATATCATTACTTTTAGCGATATGGTTGTTAGTTACGATTGTATTTTGACCAACAACTACACCAGTACCACCCCCAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTaa                                                        <  2:184931/141‑1 (MQ=255)
                                                                                       gtccTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATGGTATGGTTCCTTAGTTGCATCGGTaa                                                        <  2:767342/138‑1 (MQ=255)
                                                                                                     tttttCAAAATATCATTAGTTTTAGCTATATTGTTGTTAGTTACTTTTGTATTTTTACCAACAACTACACCTGTACCACCTACTAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTc                                          <  2:226937/141‑1 (MQ=255)
                                                                                                     tttttAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTc                                          <  1:624122/141‑1 (MQ=255)
                                                                                                      ttttAAAAATATCATTACTTTTAGCGATATTTTTGTTAGTTACGATTGTATTTTTATCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCt                                         <  2:569304/141‑1 (MQ=255)
                                                                                                          aaaaaTATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTc                                     >  1:748390/1‑141 (MQ=255)
                                                                                                          aaaaaTATCATCACTTTTAGAAATATTTTGGTTGGTGACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTc                                     <  1:732220/141‑1 (MQ=255)
                                                                                                           aaaaTATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCt                                    <  1:42585/141‑1 (MQ=255)
                                                                                                             aaTATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGc                                  <  2:371490/141‑1 (MQ=255)
                                                                                                             aaTATAATAACTTTGAGCGATATGTTTGTTAGTTACGATTGGATTCTTAAAAAGAGATAGACGAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGc                                  <  2:128966/141‑1 (MQ=255)
                                                                                                                  cATTACTTTTAGCGATATGTTTGTTAGTTACGCTTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTgg                             <  1:170168/141‑1 (MQ=255)
                                                                                                                          ttAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGaa                     <  1:15749/141‑1 (MQ=255)
                                                                                                                            aGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATg                   >  1:439223/1‑141 (MQ=255)
                                                                                                                             gCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGa                  >  1:154139/1‑141 (MQ=255)
                                                                                                                              tgATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACATCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAg                 <  2:219280/140‑1 (MQ=255)
                                                                                                                              cGATATGTTTGTTAGTTACGAGTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAg                 >  2:96819/1‑141 (MQ=255)
                                                                                                                                    gtttgttAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAGGCTGAt           <  1:513832/141‑1 (MQ=255)
                                                                                                                                      ttgttAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCA‑CCAAAACTGAATACCGCTGAATTGTATGCTTCCTTAGTTACATCGGTAATTTCTATGACATTCTTTTCTGCTTTGGCAATTGAATGACTCTGATTa         >  2:518402/1‑141 (MQ=255)
                                                                                                                                      ttgttAGTTACGATTGTATGTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAGGCTGATTa         <  1:106219/141‑1 (MQ=255)
                                                                                                                                      ttgttAG‑TACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAGGCTGATTAg        <  2:698448/141‑1 (MQ=255)
                                                                                                                                      ttgttAG‑TACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAGGCTGATTAg        <  2:699377/141‑1 (MQ=255)
                                                                                                                                       tgttAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAGGCTGATTAg        <  2:232383/141‑1 (MQ=255)
                                                                                                                                       tgttAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAGGCTGATTAg        >  1:214874/1‑141 (MQ=255)
                                                                                                                                        gttagttaCGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTAATTTAGCAATTGAATGAGACTGATTaaa       >  2:123501/1‑139 (MQ=255)
                                                                                                                                        gttagttaCAATTGTATTTTTACCAACAACTATACCAGTACCACACACAAATG‑CTACGACTAGATTGTATGGTTCCTTAGTTCGCTCTCTAATATCTATGACATTCTTTTTTACTTTGGCAATCGAGTGAGGCGGATgaga       >  2:542895/1‑141 (MQ=255)
                                                                                                                                         ttagttaCGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAGGCTGATTAGaa      <  1:761114/141‑1 (MQ=255)
                                                                                                                                             ttaCGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCCCTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGCGCCTGATTAGGTatat  >  2:371510/1‑141 (MQ=255)
                                                                                                                                             |                                                                                                                                             
AACTATCGCAAGGTCTTCTTTTCCGGGATATTCTACAATGTCTTTAACGTCGTAGTTTCCTCCGCCTTTACCT‑TTACTCGAATGATGTGCTGATACTCTATTTTTAAAAATATCATTACTTTTAGCGATATGTTTGTTAGTTACGATTGTATTTTTACCAACAACTACACCAGTACCACCCACAAATG‑CTACCACTGAATTGTATGGTTCCTTAGTTGCATCGGTAATTTCTTTGACATTCTTTTCTGCTTTGGCAATTGAATGAGGCTGATTAGAAATAT  >  USA300TCH1516_ALE/1944069‑1944349

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: ‑