Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,002,200	T→G	M173R (ATG→AGG)	mecA →	Adapter protein MecA 1

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,002,200	0	T	G	100.0%	311.6 / NA	87	M173R (ATG→AGG)	mecA	Adapter protein MecA 1
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (39/48);  total (39/48)

AGCTCAAGGTTCTAAACGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATATGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGTTTATTTAAATGACTATGCTAAAA  >  USA300TCH1516_ALE/1002057‑1002340                                                                                                                                                  |                                                                                                                                             agCTCAAGGTTCTAAACGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGtt                                                                                                                                          <  1:238349/148‑1 (MQ=255)    tCAAGGTTCTAAACGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑AAGAGTTTGAAGATTTGTTATATAGGGTTGAt                                                                                                                                       >  2:198339/1‑148 (MQ=255)      aaGGTTCTAAACGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATgg                                                                                                                                     <  1:745575/148‑1 (MQ=255)      aaGGTTCTAAACGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATgg                                                                                                                                     <  1:1167898/148‑1 (MQ=255)       aGGTTCTAAACGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGGTATATAGGGTTGATGGt                                                                                                                                    <  2:54018/148‑1 (MQ=255)          ttCTAAACGTCAAAGGTCTTCAGCACATAAAAATACAAGAACAATCATTGTGACATTTAACGATTTAAAGGATGTTATTAATTATG‑CATATCATAGCAGTCCAATAACTA‑CAGAGTTCAAGGATTTGTTATATAGGGTTGATGGAACt                                                                                                                                 >  2:490727/1‑148 (MQ=255)          ttCTAAACGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACt                                                                                                                                 >  1:194464/1‑148 (MQ=255)              aaaCGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACttatt                                                                                                                             <  1:388688/148‑1 (MQ=255)               aaCGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACttatta                                                                                                                            >  1:1364009/1‑148 (MQ=255)               aaCGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGAATTGTTATATAGGGTTGATGGTACttatta                                                                                                                            >  1:752252/1‑148 (MQ=255)                 cGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGACATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCGATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACttattatt                                                                                                                          <  2:992365/148‑1 (MQ=255)                 cGTCAAAAGCCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACttattatt                                                                                                                          <  2:1105878/148‑1 (MQ=255)                        aGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGt                                                                                                                   <  1:665300/148‑1 (MQ=255)                        aGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGt                                                                                                                   >  1:58242/1‑148 (MQ=255)                              cAGCACGTAAAAATACAAGAACAATGATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCTAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATAttt                                                                                                             <  1:866032/148‑1 (MQ=255)                              cAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATAttt                                                                                                             <  1:193482/148‑1 (MQ=255)                               aGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGGTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATAtttt                                                                                                            <  2:667368/148‑1 (MQ=255)                                 cACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGa                                                                                                          <  2:758472/148‑1 (MQ=255)                                 cACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGa                                                                                                          >  1:757207/1‑148 (MQ=255)                                          aTACAAGAACAATCATTGTGAAATTTAACGATTTAGAACATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTAGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGt                                                                                                 >  2:936158/1‑148 (MQ=255)                                           tACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGtt                                                                                                <  1:937019/148‑1 (MQ=255)                                              aaGAACCATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGAt                                                                                             <  1:1147329/148‑1 (MQ=255)                                              aaGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTTAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGAt                                                                                             <  1:1280000/148‑1 (MQ=255)                                              aaGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGAt                                                                                             <  1:1412918/148‑1 (MQ=255)                                                gaagaaTCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCa                                                                                           <  2:413984/148‑1 (MQ=255)                                                gAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCa                                                                                           >  1:529977/1‑148 (MQ=255)                                                  aCAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAAGCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCaag                                                                                         <  2:1008337/148‑1 (MQ=255)                                                    aaTCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCaagaa                                                                                       <  1:886244/148‑1 (MQ=255)                                                    aaTCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCaagaa                                                                                       >  1:1113514/1‑148 (MQ=255)                                                    aaTCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGATTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGGTCaagaa                                                                                       >  1:866521/1‑148 (MQ=255)                                                     aTCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTAGG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCaagaag                                                                                      <  2:1096366/148‑1 (MQ=255)                                                      tcgttGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGt                                                                                     <  2:1184549/145‑1 (MQ=255)                                                       cATTGTGAAATTTAACGATTTGGAATATGTTATTAATTAGT‑CATATCTGATCAATCCTATCTCTA‑TGGAGTTTGCAGTTTCGCTATATAGGGATGTTGTTAGTGATTATTATCCTGTCTTTTTTGTTTTCCATTTTTATCAAGAAGTc                                                                                    <  2:443104/148‑1 (MQ=255)                                                         ttGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCAt                                                                                  <  2:182750/148‑1 (MQ=255)                                                         ttGTGAAATGTAACAATTTATAAAATGTTATTAATTATC‑CATTTTATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTCTTATATAGGGTTGATGGTACTTATTATTATGCTTTATATTTTGATAGTCATGTTGATCAAGAAGTCAt                                                                                  <  2:328536/148‑1 (MQ=255)                                                           gtgCAATTTAACGATTTAGAAGATGTTATTAATTCTGACTCTTGTTGGCCATC‑‑AGATCTACCGGCGTGGGGACATTTGTTCTATAGGGTGCATGTGACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTa                                                                                <  2:641122/148‑1 (MQ=255)                                                           gtgAAATTTAACGATGTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTGTTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTa                                                                                <  1:295523/148‑1 (MQ=255)                                                             gAAATTTAACGATTTAGAAGGTGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGGTGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAAt                                                                              <  1:933398/148‑1 (MQ=255)                                                             gAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCCTAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAAt                                                                              <  1:765546/148‑1 (MQ=255)                                                             gAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAAt                                                                              >  1:1148793/1‑148 (MQ=255)                                                             gAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGAACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAAt                                                                              >  2:609259/1‑148 (MQ=255)                                                                aTTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGAt                                                                           <  1:1212094/148‑1 (MQ=255)                                                                       gATTTAGAAGATGTTATTAATTATG‑CATACCATAGGGATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACa                                                                    <  1:189582/148‑1 (MQ=255)                                                                        aTTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAg                                                                   <  2:830982/148‑1 (MQ=255)                                                                            agaagaTGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCaa                                                               >  1:162886/1‑148 (MQ=255)                                                                                gaTGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGc                                                           <  1:95141/148‑1 (MQ=255)                                                                                 aTGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCt                                                          <  1:125788/148‑1 (MQ=255)                                                                                 aTGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCt                                                          <  1:149056/148‑1 (MQ=255)                                                                                     tattaATTATG‑CATATCATAGCAATCCAATCACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGaa                                                      >  2:7188/1‑148 (MQ=255)                                                                                     tattaATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGaa                                                      <  2:714350/148‑1 (MQ=255)                                                                                        taattaTG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCCATTGACTGAAttt                                                   >  2:1160365/1‑148 (MQ=255)                                                                                        taattaTG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAAttt                                                   >  1:833393/1‑148 (MQ=255)                                                                                            taTG‑CATATCAAAACAAACCAATAACTA‑CAGAGTTTGAAGATTTGTAATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCtt                                               <  1:583415/148‑1 (MQ=255)                                                                                             aTG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTa                                              >  1:1157617/1‑148 (MQ=255)                                                                                              tG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTAt                                             >  2:971189/1‑148 (MQ=255)                                                                                              tG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTAt                                             >  2:62942/1‑148 (MQ=255)                                                                                              tG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTAt                                             >  2:1274973/1‑148 (MQ=255)                                                                                              tG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTAt                                             >  2:128128/1‑148 (MQ=255)                                                                                              tG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTAt                                             >  2:429970/1‑148 (MQ=255)                                                                                              tG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGCATCATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGAGCAAGAAATCATTAGTGATGGTTAGAGTCAAGTGCGTGAATTTGCTTaa                                             >  2:1305721/1‑147 (MQ=255)                                                                                               g‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTAGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATc                                            <  2:753404/148‑1 (MQ=255)                                                                                               g‑CACATCATAGCAATCCAAAAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTTTATATTTTGATAGTCAGGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATc                                            <  1:267578/148‑1 (MQ=255)                                                                                                gaatatCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATc                                            <  1:1184851/146‑1 (MQ=255)                                                                                                  atatCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCa                                          <  1:577341/148‑1 (MQ=255)                                                                                                     tCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAaca                                       >  1:1410368/1‑148 (MQ=255)                                                                                                     tCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAaca                                       >  1:532220/1‑148 (MQ=255)                                                                                                     tCATAGCAATCCAATAAATA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAaca                                       >  1:204344/1‑148 (MQ=255)                                                                                                          gCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAacagacag                                  >  2:1213355/1‑148 (MQ=255)                                                                                                          gCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAacagacag                                  >  2:1127316/1‑148 (MQ=255)                                                                                                           cAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTACATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAAcagacaga                                 >  2:944831/1‑148 (MQ=255)                                                                                                                cAATAACTA‑CTGTGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGacagaacaga                            <  1:1225403/148‑1 (MQ=255)                                                                                                                cAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGacagaacaga                            <  2:752252/148‑1 (MQ=255)                                                                                                                cAATAACTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGacagaacaga                            <  2:1364009/148‑1 (MQ=255)                                                                                                                    aaCTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATTGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGtt                        <  2:470028/148‑1 (MQ=255)                                                                                                                    aaCTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGtt                        <  1:309930/148‑1 (MQ=255)                                                                                                                     aCTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGttt                       >  1:1069460/1‑148 (MQ=255)                                                                                                                     aCTA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGttt                       >  1:504562/1‑148 (MQ=255)                                                                                                                       tA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCACCAGACAGAACAGAAGtttat                     >  2:569406/1‑148 (MQ=255)                                                                                                                       tA‑CAGAGTTTGAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGtttat                     <  1:311199/148‑1 (MQ=255)                                                                                                                            gagTTTGAAGATGTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTAGGTTTTGATAGTCATGTTGATCAAGATGTCATTAATGATAGTTACAGTCAATTGCGTGAATTTGCTTATCCAGCAGACAGAACAGAAGTTTAGTTaa                 <  2:411241/148‑1 (MQ=255)                                                                                                                                  gAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCGTTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGTTTATTTAAATGACt           >  1:539877/1‑148 (MQ=255)                                                                                                                                  gAAGATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATATTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGTCTATTTAAATGACt           >  1:1006899/1‑148 (MQ=255)                                                                                                                                     gATTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGTTTATTTAAATGACTATg        >  1:546442/1‑148 (MQ=255)                                                                                                                                      aTTTGTTATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGTTTATTTAAATGACTATGc       >  2:157843/1‑148 (MQ=255)                                                                                                                                       ttagTTATATAGGGTTGATGGTACTTATTATTATGCGGTATAAGTTGATAGTCATGTTGAGCAAGAAGTCATTAGTGCCAGTTACATTCAACTGATTGAAATTCCTTATCCAACAGAAAGAACAGAAGTTTATTTAACTGACTATGCt      <  2:684545/145‑1 (MQ=255)                                                                                                                                           ttATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGTTTATTTAAATGACTATGCTaaaa  >  2:742895/1‑148 (MQ=255)                                                                                                                                           ttATATAGGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGTTTATTTAAATGACTATGCTaaaa  >  1:1388125/1‑148 (MQ=255)                                                                                                                                                  |                                                                                                                                             AGCTCAAGGTTCTAAACGTCAAAAGTCTTCAGCACGTAAAAATACAAGAACAATCATTGTGAAATTTAACGATTTAGAAGATGTTATTAATTATG‑CATATCATAGCAATCCAATAACTA‑CAGAGTTTGAAGATTTGTTATATATGGTTGATGGTACTTATTATTATGCTGTATATTTTGATAGTCATGTTGATCAAGAAGTCATTAATGATAGTTACAGTCAATTGCTTGAATTTGCTTATCCAACAGACAGAACAGAAGTTTATTTAAATGACTATGCTAAAA  >  USA300TCH1516_ALE/1002057‑1002340

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑