Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,909,490	+T	coding (297/303 nt)	USA300HOU_RS09460 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,909,486	1	.	T	79.7%	199.8 / 49.6	69	coding (293/303 nt)	USA300HOU_RS09460	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (8/6);  new base T (31/24);  total (39/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.32e-01

TGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATAACT  >  USA300TCH1516_ALE/1909348‑1909617                                                                                                                                             |                                                                                                                                    tGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑tt                                                                                                                                   >  1:726467/1‑141 (MQ=255)   tCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑tttt                                                                                                                                 >  2:8686/1‑141 (MQ=255)    cTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑Tttta                                                                                                                                >  2:184366/1‑141 (MQ=255)     tataATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTTGTACATTC‑GG‑ttttta                                                                                                                               >  2:242985/1‑139 (MQ=255)     tataATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑ttttta                                                                                                                               <  2:219005/141‑3 (MQ=255)       taATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑Ttttattt                                                                                                                             <  1:82783/141‑1 (MQ=255)        aaTTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑tttttattt                                                                                                                            <  1:735638/141‑6 (MQ=255)          tttttGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACTTATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTaaa                                                                                                                          <  1:488611/141‑1 (MQ=255)           ttttGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTaaa                                                                                                                          >  1:216380/1‑141 (MQ=255)           ttttGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTaaa                                                                                                                          >  1:216175/1‑141 (MQ=255)            tttGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTaaaa                                                                                                                         >  2:294203/1‑141 (MQ=255)              tGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTaaaaaa                                                                                                                       >  1:368895/1‑141 (MQ=255)               gCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTAAAAAAGt                                                                                                                     >  1:419526/1‑141 (MQ=255)                  gATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTa                                                                                                                   >  1:772283/1‑141 (MQ=255)                   aTCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTaa                                                                                                                  >  2:362074/1‑141 (MQ=255)                   aTCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTAAAAAAGTTAat                                                                                                                 >  2:198889/1‑141 (MQ=255)                         cAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTc                                                                                                            <  2:188248/141‑1 (MQ=255)                                  cACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGcc                                                                                                   <  2:118788/141‑1 (MQ=255)                                   aCTAAAGGCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTAAAAAAGTTAATATGTCATTGTAGCCtt                                                                                                 >  2:332529/1‑141 (MQ=255)                                        aGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTACCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATa                                                                                             >  1:126239/1‑141 (MQ=255)                                         gCCTGATGCAGATTGGATTAGAATTGCGAGTAAACGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATAc                                                                                            >  2:115141/1‑141 (MQ=255)                                         gCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATAc                                                                                            <  1:385119/141‑1 (MQ=255)                                           cTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACaa                                                                                          <  1:282422/141‑1 (MQ=255)                                            tGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACaaa                                                                                         <  2:131513/141‑1 (MQ=255)                                                gCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAacaa                                                                                     >  1:152291/1‑141 (MQ=255)                                                   gATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAacaatac                                                                                  >  2:393136/1‑141 (MQ=255)                                                           tAGAATTGCGAGTAAAAGATTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCa                                                                         <  2:76837/141‑1 (MQ=255)                                                            aGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCa                                                                         <  1:327741/141‑1 (MQ=255)                                                              aaTTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATg                                                                       <  2:300142/141‑1 (MQ=255)                                                              aaTTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATg                                                                       <  2:28343/141‑1 (MQ=255)                                                              aaTTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTACAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGc                                                                      <  1:746877/141‑1 (MQ=255)                                                                ttGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCt                                                                     <  1:243374/141‑1 (MQ=255)                                                                ttGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCt                                                                     <  1:795324/141‑1 (MQ=255)                                                                 tGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTCAGT‑TTTTATTTAGAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCta                                                                    >  1:833870/1‑141 (MQ=255)                                                                       tAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGa                                                              >  1:347900/1‑141 (MQ=255)                                                                          aaGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTa                                                           <  2:346868/141‑1 (MQ=255)                                                                           aGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAAAAATACAATGTATCATGCTATAATGAGTaa                                                          <  2:379416/141‑1 (MQ=255)                                                                                gCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACaa                                                     <  2:75927/141‑1 (MQ=255)                                                                                  cTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAAtt                                                   <  1:265798/141‑1 (MQ=255)                                                                                   ttGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAAttt                                                  >  2:235617/1‑141 (MQ=255)                                                                                     ggATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGa                                                >  1:145423/1‑141 (MQ=255)                                                                                     ggATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGa                                                <  1:245835/141‑1 (MQ=255)                                                                                          attCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACg                                           >  1:392135/1‑141 (MQ=255)                                                                                           ttCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACgt                                          >  2:18798/1‑141 (MQ=255)                                                                                            tCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACgtt                                         <  2:270681/141‑1 (MQ=255)                                                                                                aTTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGc                                    >  1:275743/1‑141 (MQ=255)                                                                                                    ttATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGtat                                >  1:904671/1‑141 (MQ=255)                                                                                                     tATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGtat                                <  1:88113/141‑1 (MQ=255)                                                                                                     tATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGtat                                >  1:506808/1‑141 (MQ=255)                                                                                                     tATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGtata                               <  1:396541/141‑1 (MQ=255)                                                                                                         ttAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATaaaa                            >  1:822941/1‑141 (MQ=255)                                                                                                         ttAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATaaaa                            <  1:652303/141‑1 (MQ=255)                                                                                                           aGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATaaaaaa                          >  1:930070/1‑141 (MQ=255)                                                                                                            gTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAat                         >  1:708606/1‑141 (MQ=255)                                                                                                             tACATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAata                        >  1:24363/1‑141 (MQ=255)                                                                                                              aCATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAatat                       <  2:87750/141‑1 (MQ=255)                                                                                                              aCATATCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAatat                       >  1:770599/1‑141 (MQ=255)                                                                                                                atatCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTa                     >  2:125777/1‑141 (MQ=255)                                                                                                                atatCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTa                     >  1:362890/1‑141 (MQ=255)                                                                                                                 tatCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACATTACTATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAg                    >  2:357382/1‑141 (MQ=255)                                                                                                                 tatCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAg                    <  1:727024/141‑1 (MQ=255)                                                                                                                  atCTTTTCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGa                   <  2:403275/141‑1 (MQ=255)                                                                                                                       ttCAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTc              >  2:28601/1‑141 (MQ=255)                                                                                                                       ttCAATTGTTCGTACATTC‑GG‑TTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCg             <  1:83347/141‑1 (MQ=255)                                                                                                                         cAATTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGa            >  2:391511/1‑141 (MQ=255)                                                                                                                          aaTTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGaa           >  1:308751/1‑141 (MQ=255)                                                                                                                          aaTTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGaa           <  2:307441/141‑1 (MQ=255)                                                                                                                           aTTGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGaaa          >  2:385655/1‑141 (MQ=255)                                                                                                                            ttGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAAt         >  2:111835/1‑141 (MQ=255)                                                                                                                            ttGTTCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAAt         <  1:390690/141‑1 (MQ=255)                                                                                                                                tCGTACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATa     <  1:883047/141‑1 (MQ=255)                                                                                                                                tCGTACATTC‑GG‑TTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATaa    >  2:301136/1‑141 (MQ=255)                                                                                                                                   tACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATAACt  >  1:693669/1‑141 (MQ=255)                                                                                                                                   tACATTC‑GGTTTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATAACt  >  2:230465/1‑141 (MQ=255)                                                                                                                                             |                                                                                                                                    TGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTTTATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATAACT  >  USA300TCH1516_ALE/1909348‑1909617

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑