Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,154,656	A→G	6.2%	F341L (TTT→CTT)	nrgA ←	Ammonium transporter NrgA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,154,656	0	A	G	6.2%	187.8 / 2.7	64	F341L (TTT→CTT)	nrgA	Ammonium transporter NrgA
Reads supporting (aligned to +/- strand):  ref base A (43/17);  new base G (2/2);  total (45/19)
Fisher's exact test for biased strand distribution p-value = 5.76e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.03e-01

TCTTGTTCCGTAACAGATAATGGTGTAATTAATTTAATTACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTACCTTGATGTAATTAATG  >  USA300TCH1516_ALE/2154517‑2154795                                                                                                                                             |                                                                                                                                            tCTTGTTCCGTAACAGATAATGGTGTAATTAATTTAATTACTTTCGGAATAATAAACGTCATGACTATACTAAAAAATACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTAtaaataaa                                                                                                                                             <  2:10016/140‑1 (MQ=255)        ccGTAACAGATAATGGTGTAATTAATTTAATTACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATtc                                                                                                                                      >  2:274139/1‑140 (MQ=255)           tAACAGATAATGGTGTAATTAATTTAATTACTTTCGCAATAATAAACGTCGTGACTATACTAAAAATTACAAATG‑CTGTTCCACATAATATTTGTACAAGTATAATAAGTGTGTCTAAAGTCTAAATAAAGCCATTTTCa                                                                                                                                   >  2:102393/1‑140 (MQ=255)            aaCAGATAATGGTGTAATTAATTTAATTACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCCCCAGTATAAATAAAGCAATTATCaa                                                                                                                                  >  2:289068/1‑140 (MQ=255)            aaCAGATAATGATGTAATTAATTTAATTACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCCCCAGTATAAATAAAGACATTCTCaa                                                                                                                                  >  2:191689/1‑140 (MQ=255)               aGATAATGGTGTAATTAATTTAATTACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGt                                                                                                                               >  2:452375/1‑140 (MQ=255)               aGATAATGGTGTAATTAATTTAATTACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGt                                                                                                                               >  2:379035/1‑140 (MQ=255)                    aTGGTGTAATTAATTTAATTACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCGTTCTCAATGTCAGGa                                                                                                                          >  1:80187/1‑140 (MQ=255)                    aTGGTGTAATTAATTTAATTACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGa                                                                                                                          >  1:654646/1‑140 (MQ=255)                      ggTGTAATTAATTTAATTACTTTCGCAATAAGAAACGTAATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGAtt                                                                                                                        <  2:199497/140‑1 (MQ=255)                         gtAATTAATTTAATTACTTTCGCAATAATAAACGTCATGCCTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGc                                                                                                                     >  1:134199/1‑140 (MQ=255)                            attaattTAATTACTTTCGCAATAATAAACGTCATGACTATACTCAAAA‑TACCGTTGACTTTTACACATTATATGTATACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCttt                                                                                                                  <  1:481356/140‑1 (MQ=255)                                 tttaattACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAGGCCATTCTCAATGTCAGGATTGGCTTTTTTAc                                                                                                             >  2:321162/1‑140 (MQ=255)                                 tttaattACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAGGCCATTCTCAATGTCAGGATTGGCTTTTTTAc                                                                                                             >  2:690668/1‑140 (MQ=255)                                           ttCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGaaaat                                                                                                   >  1:30969/1‑139 (MQ=255)                                           ttCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTAAGGATTTACTTTTTTACTTTGGAAAAc                                                                                                   >  2:110831/1‑140 (MQ=255)                                               cAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAACctgct                                                                                               >  1:107373/1‑140 (MQ=255)                                               cAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAActgct                                                                                               >  2:386522/1‑140 (MQ=255)                                                   aataaACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTa                                                                                           >  1:487061/1‑140 (MQ=255)                                                        aCGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACa                                                                                      >  1:37108/1‑140 (MQ=255)                                                           tCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCa                                                                                   <  1:66383/140‑1 (MQ=255)                                                              tGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCCTTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCa                                                                                >  2:139214/1‑140 (MQ=255)                                                               gACTATACGAAAAATTACAACTG‑CTGTTACACACAATATTGGTACAAGTATAATATGCATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTGTGGAAAACTGCTGTTAAAACAGCACCaa                                                                               <  1:111541/140‑1 (MQ=255)                                                                aCTATACTAAAAATTACACCTG‑CAGTTACCCATAATATTTGTACAAGTATAATATGTACGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTTGAAAACTGCTGTTAAAACAGCACCaat                                                                              <  2:319306/140‑1 (MQ=255)                                                                  tataCTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCaataa                                                                            <  1:346139/140‑1 (MQ=255)                                                                  tataCTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCaataa                                                                            <  1:414308/140‑1 (MQ=255)                                                                   ataCTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCaataat                                                                           <  1:377053/140‑1 (MQ=255)                                                                      cTAAAAAGTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTGTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATacc                                                                        <  2:193195/140‑1 (MQ=255)                                                                          aaaTTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATAccacca                                                                    <  1:74273/140‑1 (MQ=255)                                                                            aTTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAac                                                                  >  1:658321/1‑140 (MQ=255)                                                                                cAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAACCTGCTGTTACAACAGCACCAATAATATCACCAACACCa                                                              >  1:346830/1‑140 (MQ=255)                                                                                  aCTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATg                                                            <  2:654646/140‑1 (MQ=255)                                                                                         gTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCACAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATATAACCAACACCATGAATAcc                                                      >  2:340717/1‑140 (MQ=255)                                                                                           tACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCaa                                                    >  2:697699/1‑140 (MQ=255)                                                                                            acacATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCaaa                                                   >  1:533339/1‑140 (MQ=255)                                                                                              acaTAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATg                                                 >  1:621023/1‑140 (MQ=255)                                                                                                          tACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGcat                                     >  2:431843/1‑140 (MQ=255)                                                                                                             aaGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTATAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGcatcat                                  >  1:62427/1‑140 (MQ=255)                                                                                                             aaGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGcatcat                                  <  1:393106/140‑1 (MQ=255)                                                                                                                tataATATGTATGTCACCAGTATAAATAAAGCCCTTCTCAATGTCAGGGTTGGCTTTTTTACTTTGGAGAACTGCTGTTAAAGCAGCTGCAATAATACCACCATCACCGTGAATACGAAATGCATCGAATgcagcacgct                               >  1:298286/1‑136 (MQ=255)                                                                                                                tataATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGat                               >  1:461231/1‑140 (MQ=255)                                                                                                                   aataTGTATGTCACCAGTATAAATAAGGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCCGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATAtt                            <  1:690668/140‑1 (MQ=255)                                                                                                                   aataTGTATGTCACCAGTATAAATAAGGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCCGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATAtt                            <  1:321162/140‑1 (MQ=255)                                                                                                                   aataTGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATACATCATGATAtt                            >  2:39894/1‑140 (MQ=255)                                                                                                                   aataTGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGC‑TTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATGTAATGCATCATGATAttt                           >  1:312865/1‑140 (MQ=255)                                                                                                                     tatgtatgTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATAtttt                          <  1:379035/140‑1 (MQ=255)                                                                                                                     tatgtatgTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATAtttt                          <  1:452375/140‑1 (MQ=255)                                                                                                                     tatgtatgTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATAtttt                          <  2:247375/140‑1 (MQ=255)                                                                                                                      atgtatgtCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATTCCACCAACACCATGAATAACAAATGCATCTAATGCATCATGATATATTa                         >  2:31193/1‑140 (MQ=255)                                                                                                                      atgtatgtCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTa                         >  1:492521/1‑140 (MQ=255)                                                                                                                        gtatgtCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAACACTGCTGTTAAAACAGCACTAATAATATCACCAACACCATGAATACCAATTGCATCTAATTCATCTTGATGTTTTTGt                       >  1:53585/1‑140 (MQ=255)                                                                                                                        gtatgtCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGt                       >  1:448881/1‑140 (MQ=255)                                                                                                                        gtatgtCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGt                       >  1:546789/1‑140 (MQ=255)                                                                                                                            gtCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGAACCAATAATACAACCAACACACTGAATACCAAATGCATCTAATGCATCAGGATATCTTaagatta                   >  2:400433/1‑134 (MQ=255)                                                                                                                              cACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTAcc                 <  2:424574/140‑1 (MQ=255)                                                                                                                              cACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTAcc                 >  1:77445/1‑140 (MQ=255)                                                                                                                              cACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATACATCATGATAATTTAGTATTaat                 >  2:675384/1‑138 (MQ=255)                                                                                                                                ccAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTACCtt               <  1:31252/140‑1 (MQ=255)                                                                                                                                 cAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGACTACCAAGTGCATCTCATGCATCATGATATTTTAGTTTTACCTTg              >  1:538082/1‑140 (MQ=255)                                                                                                                                  aGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATATCACCAACACCATGATTACCAAATGCATCTAATGCATCAAGCTATTTACGTTTTACCttac             >  2:651867/1‑138 (MQ=255)                                                                                                                                  aGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCCCCAACACCATGAATACCAAATGCATCTAATGCATCATGATAATTTAGTTTTAACttta             >  1:230915/1‑138 (MQ=255)                                                                                                                                  aGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTACCTTGa             >  1:240522/1‑140 (MQ=255)                                                                                                                                   gTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGCAATTTTAGTTTTACCTTGAt            >  2:77521/1‑140 (MQ=255)                                                                                                                                   gTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTACCTTGAt            >  1:462502/1‑140 (MQ=255)                                                                                                                                     ataaataaAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTACCTTGATGt          >  1:143780/1‑140 (MQ=255)                                                                                                                                      taaataaaGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTAGATTGATGta         >  2:514995/1‑140 (MQ=255)                                                                                                                                      taaataaaGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTACCTTGATGta         <  1:567966/140‑1 (MQ=255)                                                                                                                                      taaataaaGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTACCTTGATGta         >  1:118859/1‑140 (MQ=255)                                                                                                                                       aaataaaGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTACCTTGATGtaa        <  1:498224/140‑1 (MQ=255)                                                                                                                                           aaaGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTACCTTGATGtaattaa    <  1:562110/140‑1 (MQ=255)                                                                                                                                             aGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCACCTAATGCATCATGATATTTTAGTTTTACATAGATGTAATTAATg  >  2:138961/1‑140 (MQ=255)                                                                                                                                             |                                                                                                                                            TCTTGTTCCGTAACAGATAATGGTGTAATTAATTTAATTACTTTCGCAATAATAAACGTCATGACTATACTAAAAATTACAACTG‑CTGTTACACATAATATTTGTACAAGTATAATATGTATGTCACCAGTATAAATAAAGCCATTCTCAATGTCAGGATTGGCTTTTTTACTTTGGAAAACTGCTGTTAAAACAGCACCAATAATACCACCAACACCATGAATACCAAATGCATCTAATGCATCATGATATTTTAGTTTTACCTTGATGTAATTAATG  >  USA300TCH1516_ALE/2154517‑2154795

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: ‑