Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	1,000,948	C→T	64.3%	T11I (ACA→ATA)	spxA →	Regulatory protein Spx

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,000,948	0	C	T	64.3%	51.9 / 58.5	66	T11I (ACA→ATA)	spxA	Regulatory protein Spx
Reads supporting (aligned to +/- strand):  ref base C (14/9);  new base T (22/20);  total (37/29)
Fisher's exact test for biased strand distribution p-value = 6.05e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.90e-01

AATAAATAGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACTGATGAAA  >  USA300TCH1516_ALE/1000812‑1001082                                                                                                                                          |                                                                                                                                       aataaataGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTTTTGTTCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGATTGAGATGTATGGTAACATCATTTAATTCACCAAATTGCACATCt                                                                                                                                    >  2:1298/1‑141 (MQ=255)    aaataGTAACGATTAAGAATTGTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGc                                                                                                                                 <  1:773101/141‑1 (MQ=255)     aataGTAACGATTAAGACTTTTAGAAAAAAATGGTTTTTCTTGATCTATAACTAAATTTTAAGCCATGAATTTTATTCATTCAATT‑AGGAGATTGAGATGTATGGTAACATAATTTAGTTTCCTATGTTGCatatttagct                                                                                                                                >  2:740783/1‑135 (MQ=255)       taGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGt                                                                                                                              >  1:506049/1‑141 (MQ=255)        aGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTa                                                                                                                             >  2:657943/1‑141 (MQ=255)        aGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTa                                                                                                                             >  1:570877/1‑141 (MQ=255)         gTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTaa                                                                                                                            >  1:81620/1‑141 (MQ=255)         gTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTaa                                                                                                                            >  1:746012/1‑141 (MQ=255)            aCGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGc                                                                                                                         <  1:53240/141‑1 (MQ=255)            aCGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATAACAAAAAATTAAGGTTATTCATTCCCCTCATCAGCCACA‑AGGGATGGAAACAGGATGTACTTCACCAAGTTGCACATCTTGCCGTAAAGc                                                                                                                         >  2:359875/1‑141 (MQ=255)                ttAAGAATTTTAGAAAAAAATGTTTTTTTTTTTTTTTTTACTAAATTTTAGGCAATGAATTTTGTTTATTCTGAT‑AGGAGAGTGAGATGTATGTTTTTATAATTTAATTCACCATTTTGTATTTCTTGCAGTAAAgttaat                                                                                                                     >  2:727696/1‑136 (MQ=255)                 tAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAg                                                                                                                    >  1:414736/1‑141 (MQ=255)                  aaGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGc                                                                                                                   >  2:286283/1‑141 (MQ=255)                  aaGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGc                                                                                                                   >  2:602708/1‑141 (MQ=255)                   aGAATTTTAGAGAAAAAGTTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGCGAGTGCGATGTATGGTAACATTAGTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCa                                                                                                                  <  2:70451/141‑1 (MQ=255)                   aGAATTATAAAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCa                                                                                                                  <  2:674515/141‑1 (MQ=255)                    gAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGGGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGTCGTAAAGCGAAAGCAt                                                                                                                 >  2:310037/1‑141 (MQ=255)                    gAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCAt                                                                                                                 >  1:27570/1‑141 (MQ=255)                       ttttAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGt                                                                                                              >  1:725071/1‑141 (MQ=255)                       ttttAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGt                                                                                                              <  2:669535/141‑1 (MQ=255)                            gAAAAAAATGTTTTGTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTAGTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACaa                                                                                                         >  2:328765/1‑141 (MQ=255)                             aaaaaaaTGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAg                                                                                                        >  1:297650/1‑141 (MQ=255)                                   aTGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATg                                                                                                  >  2:718352/1‑141 (MQ=255)                                   aTGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTCCACCTTGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATg                                                                                                  <  2:759609/141‑1 (MQ=255)                                   aTGTTTTTTCTTGATCTATAACTAAATCTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATg                                                                                                  <  1:666519/141‑1 (MQ=255)                                     gTTTTTTCTTGATCTATAACTAAATTTTAAGCACGCACGTTCACTCTTGGAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGAc                                                                                                <  2:164042/141‑1 (MQ=255)                                                       actgacttttAAGCAATGAAGTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGt                                                                              <  2:572577/135‑1 (MQ=255)                                                       aCTAAATTTTAAGCAATGTATTTTATTCATCCCAAT‑AGGAGAGTGAGATGTATGGTAACATTAGTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGt                                                                              <  2:744180/141‑1 (MQ=255)                                                       aCTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGt                                                                              <  2:251169/141‑1 (MQ=255)                                                                tAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATAttttt                                                                     >  1:312299/1‑141 (MQ=255)                                                                 aaGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATAtttttt                                                                    <  1:443895/141‑1 (MQ=255)                                                                    cAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTCTGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGCAAGCATGGTTACAAGAACATGACATTCCGTATACCGAGCGTAATATTTTTTCTg                                                                 <  1:512439/141‑1 (MQ=255)                                                                    cAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTg                                                                 <  1:695987/141‑1 (MQ=255)                                                                    cAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTg                                                                 <  1:146998/141‑1 (MQ=255)                                                                     aaTGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGa                                                                <  1:324292/141‑1 (MQ=255)                                                                      aTGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGaa                                                               >  1:138896/1‑141 (MQ=255)                                                                         aaTTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACAt                                                            <  1:359875/141‑1 (MQ=255)                                                                           ttttATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCCACAAGTTGCAAAACTTGCCATAAAGCGAAAGCATGGTTACCAGAAAATGACATTCCGTATACGAAACGAGATATTGTTTCTTAACAttt                                                          >  2:599817/1‑141 (MQ=255)                                                                           ttttAGTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATGTACTCCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACAttt                                                          <  1:84639/141‑1 (MQ=255)                                                                                ttcattcaAAG‑AAGAGAGTGACTTGATGGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACaa                                                     <  2:197254/141‑1 (MQ=255)                                                                                  aatttaAAT‑CGGAGAGTTAGACTTATGGTAACATTATTTACTTAACACACACGCACATCTTCCCCTCACGCTCTCCACTTAATACTAAGACATGTCATACCGCATACGGAGCGTAATATGCCTTCTGAACATTTAACAAtt                                                   <  2:197728/140‑1 (MQ=255)                                                                                   gttcaAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATtg                                                  >  2:172816/2‑141 (MQ=255)                                                                                    ttcaAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATtga                                                 <  2:570877/141‑1 (MQ=255)                                                                                    ttcaAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATtga                                                 >  1:667332/1‑141 (MQ=255)                                                                                     tcaAAT‑AGGATAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATtgat                                                <  2:381557/141‑1 (MQ=255)                                                                                             ggAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACCATTGATGAAATTa                                         >  1:725978/1‑141 (MQ=255)                                                                                             ggAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTa                                         >  2:161927/1‑141 (MQ=255)                                                                                             ggAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTa                                         >  2:82752/1‑141 (MQ=255)                                                                                              gagaGTGAGATGTATGATAACATTATTTAATTCACCATGCTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTaa                                        <  2:201253/141‑1 (MQ=255)                                                                                                gagTGAGATGTATGGTAACATTATTAGCTTCACCAAGTTGCATATTTTGCCGGAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGc                                      <  2:320565/141‑1 (MQ=255)                                                                                                 agTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATCTTTTTTCTGAACATTTAACAATTGATGAAATTAAGCa                                     >  1:144661/1‑141 (MQ=255)                                                                                                 agTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCa                                     <  1:630165/141‑1 (MQ=255)                                                                                                 agTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCa                                     <  1:718352/141‑1 (MQ=255)                                                                                                      gacgTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGGAATTAAGCAAatat                                >  2:597592/4‑141 (MQ=255)                                                                                                      gaTGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAatat                                <  1:435588/141‑1 (MQ=255)                                                                                                       aTGTATGGTAACATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATAtt                               >  1:606397/1‑141 (MQ=255)                                                                                                                  cATTATTTACTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTg                    >  1:327888/1‑141 (MQ=255)                                                                                                                      attTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGa                >  2:491693/1‑141 (MQ=255)                                                                                                                           cTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTCAGCAAATATTAAAAATGAATGAAGACGGTa           >  2:503417/1‑141 (MQ=255)                                                                                                                           cTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTa           >  2:306160/1‑141 (MQ=255)                                                                                                                           cTTCACCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGAAGGTa           >  2:410275/1‑141 (MQ=255)                                                                                                                             tCACCAAGTTGCACATTTTGCCGTAAAGCGAAAGCATGGTTACAAGAACAGGACATTCCGTATACGGAGCGTAATATTCTTTCTGAACATTTAACAATTGAGGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACt         <  1:544240/141‑1 (MQ=255)                                                                                                                             tCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACt         >  2:251060/1‑141 (MQ=255)                                                                                                                               aCCAAGTTGCATATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACtga       >  2:758811/1‑141 (MQ=255)                                                                                                                               aCCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACtga       >  2:84023/1‑141 (MQ=255)                                                                                                                                 aaaGTTGCATATTTTGCCGAAAATCGAAAGCATGGTTACAACAACATCACATTCCGTATACGGAGCGTAATATTTTTCCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACtgatg     <  1:20963/140‑1 (MQ=255)                                                                                                                                    gTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGACGACGGTACTGATGaaa  >  2:492160/1‑141 (MQ=255)                                                                                                                                          |                                                                                                                                       AATAAATAGTAACGATTAAGAATTTTAGAAAAAAATGTTTTTTCTTGATCTATAACTAAATTTTAAGCAATGAATTTTATTCATTCAAAT‑AGGAGAGTGAGATGTATGGTAACATTATTTACTTCACCAAGTTGCACATCTTGCCGTAAAGCGAAAGCATGGTTACAAGAACATGACATTCCGTATACGGAGCGTAATATTTTTTCTGAACATTTAACAATTGATGAAATTAAGCAAATATTAAAAATGACTGAAGACGGTACTGATGAAA  >  USA300TCH1516_ALE/1000812‑1001082

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: ‑