BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	1,857,785	A→T	12.2%	S197T (TCA→ACA)	USA300HOU_RS09235 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,857,785	0	A	T	12.2%	727.3 / 20.3	322	S197T (TCA→ACA)	USA300HOU_RS09235	hypothetical protein
Reads supporting (aligned to +/- strand): ref base A (132/138); new base T (8/38); total (144/178)
Fisher's exact test for biased strand distribution p-value = 4.79e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 322 total aligned reads displayed.

TTCTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACT  >  USA300TCH1516_ALE/1857646‑1857924

ttttctGCTTGTGCTTCTTTTTTAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGAt                                                                                                                                            <  2:1429645/138‑1 (MQ=255)

 tctcTGCTTGTGCTTCTTTTTTAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATa                                                                                                                                           <  1:2202177/141‑1 (MQ=255)

  ctctGCTTGTGCTTCTTTTTTAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCGCTGCTTTTGTTTCTTCTTTTGCTAc                                                                                                                                          >  1:667599/1‑141 (MQ=255)

   tctGCTTGTGCTTCTTTTTTAGCTTCTTGACCCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACa                                                                                                                                         <  1:2425448/141‑1 (MQ=255)

    ctGCTTGTGCTTCTTTTTTAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAg                                                                                                                                        <  2:2028111/141‑1 (MQ=255)

              ttcgtTTTTAGCTTCTTGAACCTCCTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACtttt                                                                                                                              <  2:345494/141‑1 (MQ=255)

               tcttTTTTAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTa                                                                                                                             >  1:3807192/1‑141 (MQ=255)

                cttTTTTAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCTCTTTTAt                                                                                                                            >  1:4270926/1‑141 (MQ=255)

                cttTTTTAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTAt                                                                                                                            >  1:1968134/1‑141 (MQ=255)

                 ttttttAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATc                                                                                                                           <  1:3943888/141‑1 (MQ=255)

                 ttttttAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCCTGAGGCTCTTGCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATc                                                                                                                           >  1:3028079/1‑141 (MQ=17)

                   ttttAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTTCTTTTGGTTCTTCATTTGATACAGCCACACTTTTATcct                                                                                                                         >  2:2687123/1‑139 (MQ=255)

                   ttttAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTGCGGCTTTTATCGCTGCTTGTTGTGTTTTGAACACCACTGCTTTTCATGGTTGATTTGATACAGCTGCACTTTTATCTg                                                                                                                         >  1:3209360/1‑141 (MQ=14)

                    tttAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCCCTTTTATCTGt                                                                                                                        >  1:992850/1‑141 (MQ=255)

                      tAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGttt                                                                                                                      >  1:1643267/1‑141 (MQ=255)

                       tgCTTTTGGAACCTCTTGTGCCTTTTGTGTTATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTc                                                                                                                     <  2:3651027/140‑1 (MQ=255)

                       aGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATTCAGCTGCTTTTTTATCTTTTTc                                                                                                                     >  1:2246565/1‑141 (MQ=255)

                       aGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTc                                                                                                                     >  1:2142753/1‑141 (MQ=255)

                       aGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTc                                                                                                                     >  1:2633891/1‑141 (MQ=255)

                       aGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTc                                                                                                                     <  2:868604/141‑1 (MQ=255)

                          ttcttGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGc                                                                                                                  <  2:690217/141‑1 (MQ=255)

                          ttcttGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGc                                                                                                                  <  1:2581027/141‑1 (MQ=255)

                             ttGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTtg                                                                                                               <  1:3069050/141‑1 (MQ=255)

                              tGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCACTGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTtgt                                                                                                              >  2:2104252/1‑141 (MQ=255)

                                 aCCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGct                                                                                                           >  1:2851089/1‑141 (MQ=255)

                                      ttgtgcctcttgtgATATATCTCTTATATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCttt                                                                                                      <  2:4118617/141‑1 (MQ=255)

                                      ttgtgcctcttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTTAATGCCGCTGCTTTTTGTTTTTCTTTTGATACAGCTGCATTTTTATCTGTTTTTGCTTGTGCTTCttt                                                                                                      >  2:1275917/1‑141 (MQ=17)

                                       tgtgtcttttgttATTTCTCTCTTTATTTTTTTGCATTTGCTTCTTTTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCtttt                                                                                                     <  2:1229240/141‑1 (MQ=17)

                                       tgtgcctcttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCtttt                                                                                                     <  1:642453/141‑1 (MQ=255)

                                       tgtgcctcttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCtttt                                                                                                     <  1:566607/141‑1 (MQ=255)

                                        gtgcctcttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCttttt                                                                                                    <  2:737949/141‑1 (MQ=255)

                                        gtgcctcttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCttttt                                                                                                    <  2:3037148/141‑1 (MQ=255)

                                           cctcttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTACACTTTTATCTGCTTCTGCTTGTGCTTCTTTTTTAg                                                                                                 >  2:1516921/1‑141 (MQ=255)

                                           cctcttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTCATTCTTCATTTGATACAGCCACACTTTTATCTATTTCTGCCTGTGCTTCTTTTTTat                                                                                                 >  2:1956161/1‑140 (MQ=11)

                                            ctcttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGc                                                                                                <  2:2484680/141‑1 (MQ=255)

                                               ttgttATATATCACTTATATTATTTGCACTTGCTTCTCCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGcttc                                                                                             <  2:4251307/141‑1 (MQ=255)

                                               ttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGcttc                                                                                             <  1:2890415/141‑1 (MQ=255)

                                               ttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGcttc                                                                                             <  1:1558264/141‑1 (MQ=255)

                                               ttgtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGcttc                                                                                             <  2:2633891/141‑1 (MQ=255)

                                                 gtgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGcttctt                                                                                           <  1:3728703/141‑1 (MQ=255)

                                                  tgATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTg                                                                                          <  1:832029/141‑1 (MQ=255)

                                                   gATATAGCACTTATATTTTTTGCACTTGCTTCTGCTTTTATCGGTGCTTGTTGTGTTTTCAGTGCCACTGCTTTTGGTCCTTCATTTGTTACTGCTGCACTTCTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGa                                                                                         <  2:1314250/141‑1 (MQ=255)

                                                      atatCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTCGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAAtc                                                                                      <  1:3328556/141‑1 (MQ=255)

                                                        tttaCTTTAATTTTTTGCGCTTGCTTATTCTTTGATCTTTGCTTGTTGTGTTTTTAATGCTACTGCTTTTGGTTCTTCATTTGTTGTAGCTGTACTTTTGTCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAAtctc                                                                                    <  2:382984/138‑1 (MQ=17)

                                                        atCCCTTAAATTCTCTGCACTTGCTTCTTCTTTTATCCCTGCTTGTTTTGCTTTCATTTCCACTGCTTTTGCTTTTTTATTTTTTACTGCTGTACTTTTATCTGCTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAAtctc                                                                                    <  2:4411222/141‑1 (MQ=11)

                                                        atCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAAtctc                                                                                    <  1:105174/141‑1 (MQ=255)

                                                            cTTATATTATTTGCACTTGCTTCTTCTTTTTTGGCTGCTTGTTGTTCTTTCAATGCCTTTGCTTTTGGTTCTTCATTTGTTATTGCTGCACTTTTATCTTTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTtgt                                                                                <  2:3979140/141‑1 (MQ=17)

                                                            cTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTATCTTCTTGAATCTCtttt                                                                                >  1:159514/1‑139 (MQ=255)

                                                              tAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGc                                                                              <  1:1397262/141‑1 (MQ=255)

                                                              tAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGc                                                                              <  1:2771467/141‑1 (MQ=255)

                                                               aaaTTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGcc                                                                             <  1:3559881/141‑1 (MQ=255)

                                                                tattattTGCGCTTGCTTCTTCTTTTATCGCTGCTTTTTGTGCTTTCAATGCCACTGCTTTTGGTTCTGCATTTGTTATAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGccc                                                                            <  2:502640/140‑2 (MQ=17)

                                                                 attattTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCCTTCAATGCCGCTTCTTTTGTTTTTTCATTTTTTACAGCTGCTCCTTTATCTTCTTCTGTTTGTGCTTCTTTTTTAGCTTCTTGTCTCTCTtgttcttc                                                                           >  2:2596496/1‑136 (MQ=11)

                                                                  ttattTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTAATTTGATACTGCTACACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCttct                                                                          >  2:2976689/1‑141 (MQ=255)

                                                                  ttattTGCACTTGCTTCTTCTTTAGTCGGTCCTTTTTGTGCATACAATCACACTGATTTTAGATCTTGATTTGATACAGCTACACATTTAACTGATTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCACTTGTGCctct                                                                          >  2:323000/1‑141 (MQ=9)

                                                                   tattTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCtt                                                                         <  1:699091/141‑1 (MQ=255)

                                                                   tatcTGCACTTGCCTCTCTTTTTATCGCTGCTTGTTTTGCTTTCTTTGCTACTTCTTTTGGTTTTTCATTTTTTATTGCTGCGCTTCTGTCTTTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCtt                                                                         <  2:3409844/141‑1 (MQ=12)

                                                                   tagttGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCtt                                                                         <  1:1922982/138‑1 (MQ=255)

                                                                      ttGCACTCGCTTCTTCTTTTATCGCTGCTTGTTGTACTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTCTCTGTTTCTGCTTGTCCTTCTTTTTTAGCTTCTTGCAACTCTTATGCCTCTtgtg                                                                      >  1:2105380/1‑141 (MQ=17)

                                                                           cTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAACGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGtt                                                                 >  1:2679982/1‑140 (MQ=255)

                                                                                ttgttcttTTATCTCTGCTTGTTGTTCTTTCATTGTTCCTGCTTTTTGTTTTTTCTGTTATATTGTTTTGCTTTTGTCTTTTTCTGCTTGTGCTTCTTTTTTAGCTTCCTGAATCTCTTGTGCCTCTTGTGATGTATCACt                                                            <  2:3902347/138‑1 (MQ=9)

                                                                                ttcttcttTTATCGCTGCTTGTTGTGTTTTCAATTCTACTGCTTTTGTTTCTTTATTTGTTATAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTCTTTTAGCTTCTTGAATCTCTTGTGCTTCTTGTGATGTATCACt                                                            <  2:2913992/141‑1 (MQ=11)

                                                                                  ttttttttATTTCTGCTTCTTGTTCTTTTACTTCTACTTCTTTTGGTTTTTCATTTTTTATTGCTGCACTTTTATCTTTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCa                                                          <  2:379786/137‑1 (MQ=17)

                                                                                   ttcttTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTcga                                                         >  1:2816048/1‑139 (MQ=255)

                                                                                   ttcttTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGACTCTTGTGATGTATTACTcga                                                         >  1:2448980/1‑139 (MQ=255)

                                                                                        ttgtctctgttTGTTGTGCTTTTACTGCCACTTTTTTTGGTTCTTCATTTGTTATTGCTGTACTTTTGTCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACACAAattat                                                    <  2:569987/135‑1 (MQ=17)

                                                                                        ttATCGCTGCTTGTTGTGTTGTTAATTCCACTTTTTTTGGTTTTTCATTTTTTATTGCTGCGCTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAattat                                                    <  2:4079784/141‑1 (MQ=17)

                                                                                               tgctTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACt                                             <  1:2501911/141‑1 (MQ=255)

                                                                                                  ttgttgTTCTTTTACTTCTACTGTTGTTGGTCTTTCATTTTTTATTACTGTGTTTTTGTCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACtttc                                          <  2:4334199/141‑3 (MQ=9)

                                                                                                    gttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCTTCTTGTGATGTATCATTCAGATTAGCTTCACTTTctt                                        >  2:2322704/1‑141 (MQ=17)

                                                                                                    gttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTTTTTGCACTTGctt                                        >  1:744791/1‑141 (MQ=255)

                                                                                                    gttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTCATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGctt                                        <  1:3169170/141‑1 (MQ=255)

                                                                                                     ttgtGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGcttc                                       <  1:3844141/141‑1 (MQ=255)

                                                                                                     ttgtGCTTTCAATGCCACTGCTTGTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGcttc                                       <  1:1351795/141‑1 (MQ=255)

                                                                                                       gtgCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTTCTTCTTTTTTAGCTTATTGGATATCTTTTGCATCTTATTATATATCTCTCTAATTGTTTTCACTTTcttatt                                     >  2:3316700/1‑141 (MQ=17)

                                                                                                       gtgCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTTCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGcttctt                                     >  2:221567/1‑141 (MQ=255)

                                                                                                       gtgCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCACATTATTTGCACTTGcttctt                                     >  1:910285/1‑141 (MQ=255)

                                                                                                              cAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTAt                              <  1:4006186/141‑1 (MQ=255)

                                                                                                              cAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTAt                              >  1:1867931/1‑141 (MQ=255)

                                                                                                                aTGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCg                            >  1:3285134/1‑141 (MQ=255)

                                                                                                                  gCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCACATTTTTTGCTCTGTGTTTTTCTTTTATCgct                          >  1:2054305/1‑141 (MQ=18)

                                                                                                                  gCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCgct                          <  1:3370200/141‑1 (MQ=255)

                                                                                                                  gCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCCTCTCTTATCgct                          >  2:1621471/1‑141 (MQ=255)

                                                                                                                   ccACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATAATTTGCACTTGCTTCTTCTTTTATCgctt                         >  2:3706933/1‑140 (MQ=255)

                                                                                                                   ccACTGCTTATGGTTCTTCATTGTATACAGCAGCACTTTGATATGGTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTTTGCCTCTTGTGATCTCTCACAACACTTAGGTGGACTTGCTTCTTCTTTTATCgctg                         >  2:1767478/1‑141 (MQ=14)

                                                                                                                    cACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAat                                                       >  1:4405999/1‑110 (MQ=255)

                                                                                                                        gCTTTTGGTTCTTCATTTGCTACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGGATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttgt                    <  1:2472461/141‑1 (MQ=255)

                                                                                                                         cTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttgtt                   >  1:3675644/1‑141 (MQ=255)

                                                                                                                          ttttGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttgttg                  <  1:1242270/141‑1 (MQ=255)

                                                                                                                          ttttGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCAATTGCTTCTTCTTTTATCGCTCCttgttt                  >  2:3661794/1‑140 (MQ=255)

                                                                                                                          tgtttgTTTTTCATTTGTTGTTGCTGCGTTTCTGTCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCttgttg                  <  2:2246923/136‑1 (MQ=11)

                                                                                                                           tttGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTTCCTCTTGTGATGTTTTACTCATATTATTTGCATTTGTTTCTTCTTTTTTTGTTGCttgttct                 >  2:3586475/1‑139 (MQ=17)

                                                                                                                           tctGGTTCTTCATTTGTTACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTtgttgt                 <  1:1469740/139‑1 (MQ=255)

                                                                                                                              ggTTCTTCATTTGATACAGATGCACTTTAACCGTTGTCTTCGTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCt              >  1:4196857/1‑141 (MQ=17)

                                                                                                                                ttcttcATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCttt            >  1:1098996/1‑141 (MQ=255)

                                                                                                                                      aTTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGc      <  1:3643128/141‑1 (MQ=255)

                                                                                                                                         tGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTTAAATTATTTGCACt                                             <  2:2829306/99‑1 (MQ=255)

                                                                                                                                          gATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACt  >  1:4032025/1‑141 (MQ=255)

                                                                                                                                          gATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACt  >  1:118342/1‑141 (MQ=255)

                                                                                                                                          gATACAGCTGCACTTTTATATGTTTATGCTTGTGCTTCTTTCTTAGCTTCTTGCATATCTTGTGTATATTGTGATGTATCACTCCAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACt  >  1:1825216/1‑141 (MQ=17)

TTCTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAACCTCTTGTGCCTCTTGTGATATATCACTTAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACTGCTTTTGGTTCTTCATTTGATACAGCTGCACTTTTATCTGTTTCTGCTTGTGCTTCTTTTTTAGCTTCTTGAATCTCTTGTGCCTCTTGTGATGTATCACTCAAATTATTTGCACTTGCTTCTTCTTTTATCGCTGCTTGTTGTGCTTTCAATGCCACT  >  USA300TCH1516_ALE/1857646‑1857924

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: `‑`