Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I1 R1 1548 369.5 20095359 96.9% 19472402 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,613,076 T→C T276A (ACT→GCT)  perM ← putative permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,613,0760TC99.6% 784.6 / ‑5.2 242T276A (ACT→GCT) perMputative permease
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (120/121);  total (120/122)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.59e-01

Only 100 of 245 total aligned reads displayed.

TAACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGTACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCG  >  NC_000913/2612986‑2613164
                                                                                          |                                                                                        
tAACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCAc                                                                                        <  1:8037591/93‑1 (MQ=255)
tAACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCAc                                                                                        <  2:2820692/93‑1 (MQ=255)
 aaCCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCAcc                                                                                       <  1:4246505/93‑1 (MQ=255)
 aaCCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCAcc                                                                                       <  1:7046324/93‑1 (MQ=255)
 aaCCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCAcc                                                                                       <  1:2681641/93‑1 (MQ=255)
  aCCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCt                                                                                      <  2:4481305/93‑1 (MQ=255)
  aCCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCt                                                                                      <  2:5434146/93‑1 (MQ=255)
   ccGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTg                                                                                     >  2:4683893/1‑93 (MQ=255)
       ttCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGGGcc                                                                                 >  2:982911/1‑93 (MQ=255)
       ttCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGcc                                                                                 >  2:7257150/1‑93 (MQ=255)
       ttCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGcc                                                                                 >  2:3632339/1‑93 (MQ=255)
        tCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCGGCGCCTGAATAATCAGATACAACGCGAAGCAGCTCCAGAATTCAGCACCTGAGCCa                                                                                >  1:5392318/1‑93 (MQ=255)
         cGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCaa                                                                               >  2:1734766/1‑93 (MQ=255)
         cGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCaa                                                                               >  1:7800130/1‑93 (MQ=255)
          ggAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCaaa                                                                              <  2:7133859/93‑1 (MQ=255)
          ggAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCaaa                                                                              >  1:2561021/1‑93 (MQ=255)
          ggAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCaaa                                                                              <  1:6767210/93‑1 (MQ=255)
           gagaACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAAc                                                                             >  1:594606/1‑93 (MQ=255)
           gagaACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAAc                                                                             <  1:1026856/93‑1 (MQ=255)
                caacaCCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGaa                                                                        >  1:5642529/1‑93 (MQ=255)
                  acacCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATa                                                                      <  2:1269268/93‑1 (MQ=255)
                  acacCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATa                                                                      <  1:3497520/93‑1 (MQ=255)
                    acCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAgc                                                                    >  1:8898595/1‑93 (MQ=255)
                    acCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAgc                                                                    >  1:223063/1‑93 (MQ=255)
                        gCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGcgcca                                                                <  1:4286375/93‑1 (MQ=255)
                        gCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGcgcca                                                                <  1:1445189/93‑1 (MQ=255)
                           cTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGcgccacgc                                                             <  1:9491706/93‑1 (MQ=255)
                           cTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGcgccacgc                                                             >  1:285548/1‑93 (MQ=255)
                            tAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGcgccacgcc                                                            >  2:8134919/1‑93 (MQ=255)
                            tAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGcgccacgcc                                                            >  1:9347242/1‑93 (MQ=255)
                               cAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAac                                                         >  1:4129138/1‑93 (MQ=255)
                               cAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAac                                                         >  1:8085951/1‑93 (MQ=255)
                               cAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAac                                                         >  2:8375035/1‑93 (MQ=255)
                                aGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAacc                                                        <  1:2283451/93‑1 (MQ=255)
                                aGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAacc                                                        <  2:5874504/93‑1 (MQ=255)
                                 ggTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAacca                                                       <  1:8557742/93‑1 (MQ=255)
                                 ggTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAacca                                                       <  2:2418890/93‑1 (MQ=255)
                                 ggTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAacca                                                       >  2:9584688/1‑93 (MQ=255)
                                 ggTTGCCGTCCAGCGCCTGAATAATCAGACACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAacca                                                       <  1:1947562/93‑1 (MQ=255)
                                  gTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAaccac                                                      >  2:8868544/1‑93 (MQ=255)
                                        gTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAAt                                                <  2:1369626/93‑1 (MQ=255)
                                        gTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAAt                                                >  1:1919855/1‑93 (MQ=255)
                                           cAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGt                                             >  1:8992385/1‑93 (MQ=255)
                                            aGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTc                                            >  1:4667004/1‑93 (MQ=255)
                                             gcgcCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTca                                           >  2:4613511/1‑93 (MQ=255)
                                             gcgcCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTca                                           <  2:919925/93‑1 (MQ=255)
                                              cgcCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTcac                                          <  2:7675557/93‑1 (MQ=255)
                                              cgcCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTcac                                          <  2:8684794/93‑1 (MQ=255)
                                               gcCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTcacc                                         >  2:546832/1‑93 (MQ=255)
                                               gcCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTcacc                                         >  1:7301336/1‑93 (MQ=255)
                                                  tGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACcaca                                      >  1:8272003/1‑93 (MQ=255)
                                                  tGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACcaca                                      >  1:5141750/1‑93 (MQ=255)
                                                   gAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACaa                                     >  1:9073430/1‑93 (MQ=255)
                                                   gAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACaa                                     <  1:6031099/93‑1 (MQ=255)
                                                    aataatCAGATACCCCCCGAAGCAGCTCCAGAATCCAGCCACTGCGCCAAACTGGAATAGAGCCACGCCAACCACCGGAATGGTCACCACaaa                                    <  1:1971657/93‑1 (MQ=255)
                                                    aataatCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACaaa                                    <  2:9701133/93‑1 (MQ=255)
                                                    aataatCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACaaa                                    <  2:2943081/93‑1 (MQ=255)
                                                     ataatCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAAt                                   >  2:6328496/1‑93 (MQ=255)
                                                     ataatCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAAt                                   >  2:5070664/1‑93 (MQ=255)
                                                      taatCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATg                                  >  1:8206973/1‑93 (MQ=255)
                                                      aaatCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATg                                  <  1:3407527/92‑1 (MQ=255)
                                                            gATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCaa                            <  2:437526/93‑1 (MQ=255)
                                                            gATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCaa                            <  2:5131413/93‑1 (MQ=255)
                                                             aTACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAAt                           >  2:3208815/1‑93 (MQ=255)
                                                               acacCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGt                         >  1:1089216/1‑93 (MQ=255)
                                                               acacCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGt                         <  2:8802507/93‑1 (MQ=255)
                                                                 acCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTAc                       >  1:1562621/1‑93 (MQ=255)
                                                                 acCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTAc                       <  2:1091222/93‑1 (MQ=255)
                                                                  ccGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACg                      <  2:6930582/93‑1 (MQ=255)
                                                                   cgcgAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACgg                     >  1:3215737/1‑93 (MQ=255)
                                                                   cgcgAAGCAGCCCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACgg                     >  2:6765027/1‑93 (MQ=255)
                                                                     cgAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGaa                   <  1:6467892/93‑1 (MQ=255)
                                                                      gAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAAt                  <  1:3937962/93‑1 (MQ=255)
                                                                      gAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAAt                  <  2:1509988/93‑1 (MQ=255)
                                                                       aaGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATa                 >  1:7402438/1‑93 (MQ=255)
                                                                        agcagcTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATaa                <  2:9446138/93‑1 (MQ=255)
                                                                         gcagcTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAg               <  2:3940680/93‑1 (MQ=255)
                                                                          cagcTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGa              <  2:6729399/93‑1 (MQ=255)
                                                                          cagcTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGa              <  1:1765242/93‑1 (MQ=255)
                                                                          cagcTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGa              <  1:5255268/93‑1 (MQ=255)
                                                                           agcTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGaa             <  1:9104759/93‑1 (MQ=255)
                                                                            gcTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAAc            <  2:6123183/93‑1 (MQ=255)
                                                                            gcTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAAc            >  2:2032605/1‑93 (MQ=255)
                                                                            gcTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAAc            <  2:372777/93‑1 (MQ=255)
                                                                            acTCCACAATTCAGTACCTTCGCCAAACTGGAATAGCGCCACGCCAACCACCGGATTGGTCACCACAAATGCGCCAATGTACGGAATAAGAAc            <  2:9191424/92‑1 (MQ=255)
                                                                              tCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCg          >  1:1251800/1‑93 (MQ=255)
                                                                              tCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCg          >  2:4298496/1‑93 (MQ=255)
                                                                               ccAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCga         >  1:9853472/1‑93 (MQ=255)
                                                                                cAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCgag        >  2:2314643/1‑93 (MQ=255)
                                                                                cAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCgag        <  2:7198875/93‑1 (MQ=255)
                                                                                  gAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGaa      <  2:7469771/93‑1 (MQ=255)
                                                                                  gAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGaa      <  2:4560370/93‑1 (MQ=255)
                                                                                  aaaTTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCGAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGaa      <  2:3167426/92‑1 (MQ=255)
                                                                                   aaTTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTCCGGAATAAGAACCGAGAAg     <  1:6612272/93‑1 (MQ=255)
                                                                                   aaTTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAg     >  1:743456/1‑93 (MQ=255)
                                                                                    aTTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGc    <  1:2378547/93‑1 (MQ=255)
                                                                                     ttCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGcc   >  2:3316816/1‑93 (MQ=255)
                                                                                     ttCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGcc   >  2:6368380/1‑93 (MQ=255)
                                                                                     atCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGcc   <  1:5447412/92‑1 (MQ=255)
                                                                                      tCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCg  >  2:6586746/1‑93 (MQ=255)
                                                                                          |                                                                                        
TAACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGTACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCG  >  NC_000913/2612986‑2613164

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
TTAACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGTACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCGACCAG  >  NC_000913/2612985‑2613169
                                                                                           |                                                                                             
TTAACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCAC                                                                                             <  SRR4302540.6958429/94‑1 (MQ=60)
TTAACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCAC                                                                                             <  SRR4302540.6958426/94‑1 (MQ=60)
 TAACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACC                                                                                            <  SRR4302540.8131002/94‑1 (MQ=60)
 TAACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACC                                                                                            <  SRR4302540.7495624/94‑1 (MQ=60)
  AACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCT                                                                                           >  SRR4302540.8905250/1‑94 (MQ=60)
  AACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCT                                                                                           <  SRR4302540.2710640/94‑1 (MQ=60)
  AACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCT                                                                                           <  SRR4302540.7124680/94‑1 (MQ=60)
  AACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCT                                                                                           <  SRR4302540.4292709/94‑1 (MQ=60)
  AACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCT                                                                                           <  SRR4302540.5440894/94‑1 (MQ=60)
   ACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTG                                                                                          >  SRR4302540.5227020/1‑94 (MQ=60)
        TTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCGGCGCCTGAATAATCAGATACAACGCGAAGCAGCTCCAGAATTCAGCACCTGAGCCA                                                                                     >  SRR4302540.5451611/1‑94 (MQ=60)
        TTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCA                                                                                     >  SRR4302540.5451609/1‑94 (MQ=60)
         TCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAA                                                                                    >  SRR4302540.7891301/1‑94 (MQ=60)
          CGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAA                                                                                   >  SRR4302540.2588630/1‑94 (MQ=60)
           GGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAAC                                                                                  <  SRR4302540.6842000/94‑1 (MQ=60)
           GGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAAC                                                                                  >  SRR4302540.600998/1‑94 (MQ=60)
           GGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAAC                                                                                  <  SRR4302540.6841999/94‑1 (MQ=60)
           GGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAAC                                                                                  >  SRR4302540.173974/1‑94 (MQ=60)
           GGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAAC                                                                                  >  SRR4302540.7443177/1‑94 (MQ=60)
           GGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAAC                                                                                  >  SRR4302540.9202681/1‑94 (MQ=60)
            GAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACT                                                                                 <  SRR4302540.1037270/94‑1 (MQ=60)
            GAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACT                                                                                 >  SRR4302540.6928878/1‑94 (MQ=60)
            GAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACT                                                                                 <  SRR4302540.1037269/94‑1 (MQ=60)
              GAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGG                                                                               >  SRR4302540.7220710/1‑94 (MQ=60)
              GAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGG                                                                               >  SRR4302540.3336604/1‑94 (MQ=60)
              GAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGG                                                                               >  SRR4302540.3040130/1‑94 (MQ=60)
               AACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGA                                                                              >  SRR4302540.6552985/1‑94 (MQ=60)
                ACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAA                                                                             <  SRR4302540.7509184/94‑1 (MQ=60)
                ACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAA                                                                             >  SRR4302540.5704633/1‑94 (MQ=60)
                 CAACCCCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAAT                                                                            <  SRR4302540.2350046/94‑1 (MQ=60)
                 CAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAAT                                                                            <  SRR4302540.2072628/94‑1 (MQ=60)
                 CAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAAT                                                                            <  SRR4302540.4260522/94‑1 (MQ=60)
                  AACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATCCACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATA                                                                           <  SRR4302540.2702679/94‑1 (MQ=60)
                   ACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAG                                                                          <  SRR4302540.1273166/94‑1 (MQ=60)
                   ACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAG                                                                          <  SRR4302540.3535607/94‑1 (MQ=60)
                   ACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAG                                                                          >  SRR4302540.8114040/1‑94 (MQ=60)
                    CACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGC                                                                         >  SRR4302540.225223/1‑94 (MQ=60)
                    CACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGC                                                                         >  SRR4302540.9001611/1‑94 (MQ=60)
                     ACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCG                                                                        <  SRR4302540.4254337/94‑1 (MQ=60)
                        GGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGACTAGCGCCA                                                                     >  SRR4302540.7915274/1‑94 (MQ=60)
                         GCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCAC                                                                    <  SRR4302540.1460900/94‑1 (MQ=60)
                         GCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCAC                                                                    <  SRR4302540.4333002/94‑1 (MQ=60)
                          nnncAACNGNTTGCCGTCCANNNNCNGAATAATCAGATACACCGCGANGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACG                                                                   <  SRR4302540.2758624/90‑1 (MQ=60)
                           ACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGC                                                                  >  SRR4302540.288360/1‑94 (MQ=60)
                            CTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCC                                                                 <  SRR4302540.9604216/94‑1 (MQ=60)
                            CTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCC                                                                 >  SRR4302540.131695/1‑94 (MQ=60)
                            CTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCC                                                                 >  SRR4302540.9458588/1‑94 (MQ=60)
                            CTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCC                                                                 <  SRR4302540.9413015/94‑1 (MQ=60)
                             TAACAGGTGGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCA                                                                <  SRR4302540.4720945/94‑1 (MQ=60)
                              AACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAA                                                               >  SRR4302540.9952054/1‑94 (MQ=60)
                               ACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAAC                                                              >  SRR4302540.8179803/1‑94 (MQ=60)
                               ACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAAC                                                              >  SRR4302540.4173771/1‑94 (MQ=60)
                                CAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCTCCACGCCAACC                                                             >  SRR4302540.8180033/1‑94 (MQ=60)
                                CAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACC                                                             >  SRR4302540.146996/1‑94 (MQ=60)
                                 AGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCA                                                            <  SRR4302540.2307992/94‑1 (MQ=60)
                                  GGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCAC                                                           <  SRR4302540.8657142/94‑1 (MQ=60)
                                  GGTTGCCGTCCAGCGCCTGAATAATCAGACACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCAC                                                           <  SRR4302540.1968758/94‑1 (MQ=60)
                                  GGTTGCCGCCCAGCGCCTGAATAATCAGATCCCCCGCGAAGCAGCTCCAGAATGCAGCACCTGCGCCAAACTGGAATAGCGCCCCGCCAACCAC                                                           <  SRR4302540.1968759/94‑1 (MQ=60)
                                   GTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACC                                                          <  SRR4302540.2460766/94‑1 (MQ=60)
                                     TGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGG                                                        <  SRR4302540.830120/94‑1 (MQ=60)
                                        CGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAAT                                                     >  SRR4302540.248229/1‑94 (MQ=60)
                                        CGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAAT                                                     >  SRR4302540.1940801/1‑94 (MQ=60)
                                        CGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAAT                                                     >  SRR4302540.1940804/1‑94 (MQ=60)
                                         GTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATG                                                    <  SRR4302540.6777339/94‑1 (MQ=60)
                                          TCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGG                                                   <  SRR4302540.6044707/94‑1 (MQ=60)
                                           CCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGT                                                  >  SRR4302540.9100175/1‑94 (MQ=60)
                                           CCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGT                                                  <  SRR4302540.8132194/94‑1 (MQ=60)
                                            CAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTC                                                 >  SRR4302540.4716960/1‑94 (MQ=60)
                                             AGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCA                                                <  SRR4302540.3251252/94‑1 (MQ=60)
                                              GCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCAC                                               >  SRR4302540.9448566/1‑94 (MQ=60)
                                               CGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACC                                              >  SRR4302540.8212952/1‑94 (MQ=60)
                                               CGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACC                                              >  SRR4302540.7382832/1‑94 (MQ=60)
                                                  CTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACA                                           <  SRR4302540.9954888/94‑1 (MQ=60)
                                                  CTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACA                                           >  SRR4302540.8368106/1‑94 (MQ=60)
                                                  CTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACA                                           >  SRR4302540.5197442/1‑94 (MQ=60)
                                                   TGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAA                                          >  SRR4302540.9182392/1‑94 (MQ=60)
                                                    GAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAA                                         >  SRR4302540.1916205/1‑94 (MQ=60)
                                                    GAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAA                                         <  SRR4302540.6098033/94‑1 (MQ=60)
                                                    GAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAA                                         >  SRR4302540.9572210/1‑94 (MQ=60)
                                                     AATAATCAGATACCCCCCGAAGCAGCTCCAGAATCCAGCCACTGCGCCAAACTGGAATAGAGCCACGCCAACCACCGGAATGGTCACCACAAAT                                        <  SRR4302540.1993063/94‑1 (MQ=60)
                                                     AATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAAT                                        <  SRR4302540.1978296/94‑1 (MQ=60)
                                                     AATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAAT                                        <  SRR4302540.4298395/94‑1 (MQ=60)
                                                      ATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATG                                       >  SRR4302540.8302339/1‑94 (MQ=60)
                                                      ATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATG                                       <  SRR4302540.2794861/94‑1 (MQ=60)
                                                       TAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGC                                      >  SRR4302540.557723/1‑94 (MQ=60)
                                                       TAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGC                                      <  SRR4302540.3623880/94‑1 (MQ=60)
                                                       AAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGC                                      <  SRR4302540.3444649/94‑1 (MQ=60)
                                                        TATCAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCG                                     >  SRR4302540.788014/1‑94 (MQ=60)
                                                           CAGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCA                                  >  SRR4302540.9135914/1‑94 (MQ=60)
                                                            AGATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAA                                 >  SRR4302540.2286083/1‑94 (MQ=60)
                                                             GATACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAAT                                <  SRR4302540.9165877/94‑1 (MQ=60)
                                                               TACACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGT                              >  SRR4302540.1100395/1‑94 (MQ=60)
                                                                 CACCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTAC                            >  SRR4302540.1579775/1‑94 (MQ=60)
                                                                  CCCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACG                           <  SRR4302540.2130643/94‑1 (MQ=60)
                                                                   CCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGG                          >  SRR4302540.7187362/1‑94 (MQ=60)
                                                                   CCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGG                          >  SRR4302540.2823334/1‑94 (MQ=60)
                                                                   CCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGG                          >  SRR4302540.3250655/1‑94 (MQ=60)
                                                                   CCGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGG                          <  SRR4302540.4847639/94‑1 (MQ=60)
                                                                    CGCGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGA                         <  SRR4302540.8985236/94‑1 (MQ=60)
                                                                      CGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAAT                       <  SRR4302540.6539863/94‑1 (MQ=60)
                                                                      CGAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAAT                       <  SRR4302540.5813565/94‑1 (MQ=60)
                                                                       GAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATA                      >  SRR4302540.7484908/1‑94 (MQ=60)
                                                                       GAAGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATA                      <  SRR4302540.3980511/94‑1 (MQ=60)
                                                                         AGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAG                    >  SRR4302540.3835543/1‑94 (MQ=60)
                                                                         AGCAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAG                    <  SRR4302540.6266113/94‑1 (MQ=60)
                                                                           CAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAA                  <  SRR4302540.1960320/94‑1 (MQ=60)
                                                                           CAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAA                  <  SRR4302540.5312586/94‑1 (MQ=60)
                                                                           CAGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAA                  <  SRR4302540.1784387/94‑1 (MQ=60)
                                                                            AGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAAC                 <  SRR4302540.9214167/94‑1 (MQ=60)
                                                                            AGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAAC                 <  SRR4302540.5568868/94‑1 (MQ=60)
                                                                            AGCTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAAC                 >  SRR4302540.1216309/1‑94 (MQ=60)
                                                                              CTCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCG               >  SRR4302540.1264581/1‑94 (MQ=60)
                                                                               TCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGA              >  SRR4302540.9968630/1‑94 (MQ=60)
                                                                               TCCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGA              <  SRR4302540.8524810/94‑1 (MQ=60)
                                                                                CCAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAG             >  SRR4302540.3502846/1‑94 (MQ=60)
                                                                                 CAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGA            >  SRR4302540.6066832/1‑94 (MQ=60)
                                                                                 CAGAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGA            >  SRR4302540.1658977/1‑94 (MQ=60)
                                                                                  AGAATACAGCACCTGCGCCAAACTGGACTAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAA           <  SRR4302540.9030194/94‑1 (MQ=60)
                                                                                   GAATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAG          >  SRR4302540.751381/1‑94 (MQ=60)
                                                                                    AATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTCCGGAATAAGAACCGAGAAGC         <  SRR4302540.6685491/94‑1 (MQ=60)
                                                                                    AATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAACAAGAACCGAGAAGC         >  SRR4302540.4684319/1‑94 (MQ=60)
                                                                                     ATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCC        >  SRR4302540.4156419/1‑94 (MQ=60)
                                                                                     ATTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCC        <  SRR4302540.2404177/94‑1 (MQ=60)
                                                                                      TTCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCG       <  SRR4302540.5507354/94‑1 (MQ=60)
                                                                                      ATCAGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCG       <  SRR4302540.5507355/94‑1 (MQ=60)
                                                                                         AGCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCGACC    >  SRR4302540.6425585/1‑94 (MQ=60)
                                                                                          GCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCGACCA   >  SRR4302540.907466/1‑94 (MQ=60)
                                                                                          GCACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCGACCA   >  SRR4302540.3925510/1‑94 (MQ=60)
                                                                                           CACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCGACCAG  >  SRR4302540.1145905/1‑94 (MQ=60)
                                                                                           |                                                                                             
TTAACCGCTTCGGAGAACAACACCGGCACTAACAGGTTGCCGTCCAGCGCCTGAATAATCAGATACACCGCGAAGCAGCTCCAGAATTCAGTACCTGCGCCAAACTGGAATAGCGCCACGCCAACCACCGGAATGGTCACCACAAATGCGCCAATGTACGGAATAAGAACCGAGAAGCCGACCAG  >  NC_000913/2612985‑2613169

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑