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
A2 F4 I0 R1 23 83.6 4416766 96.4% 4257762 99.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,535,618 A→T 100% L84Q (CTG→CAG)  envZ ← sensory histidine kinase EnvZ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,535,6180AT100.0% 340.4 / NA 87L84Q (CTG→CAG) envZsensory histidine kinase EnvZ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (42/45);  total (42/45)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

AGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCAGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCG  >  NC_000913/3535522‑3535713
                                                                                                |                                                                                               
aGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGc                                                                                               <  1:392614/99‑1 (MQ=255)
   tgctgcGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCa                                                                                            <  2:1777418/99‑1 (MQ=255)
    gctgcGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCAc                                                                                           >  1:1191848/1‑99 (MQ=255)
     ctgcGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACg                                                                                          <  1:1326970/99‑1 (MQ=255)
     ctgcGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACg                                                                                          >  1:251415/1‑99 (MQ=255)
       gcgcCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGt                                                                                        <  1:220660/99‑1 (MQ=255)
        cgcCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTa                                                                                       <  2:1523842/99‑1 (MQ=255)
          ccATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGa                                                                                     <  2:2107965/99‑1 (MQ=255)
          ccATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGa                                                                                     >  1:398083/1‑99 (MQ=255)
           cATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGAt                                                                                    >  1:1655000/1‑99 (MQ=255)
              cTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGAtctc                                                                                 <  1:698625/99‑1 (MQ=255)
               tGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTcc                                                                                <  1:832539/99‑1 (MQ=255)
               tGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTcc                                                                                <  2:1873006/99‑1 (MQ=255)
               tGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTcc                                                                                <  1:220607/99‑1 (MQ=255)
                gATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTccc                                                                               >  2:639190/1‑99 (MQ=255)
                  tGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGa                                                                             <  1:1566813/99‑1 (MQ=255)
                  tGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGa                                                                             >  2:180672/1‑99 (MQ=255)
                   ggCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGAc                                                                            >  1:77868/1‑99 (MQ=255)
                   ggCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGAc                                                                            <  1:207191/99‑1 (MQ=255)
                    gCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACg                                                                           >  2:1562087/1‑99 (MQ=255)
                        aaGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGaaa                                                                       <  1:306545/99‑1 (MQ=255)
                         aGAATTCATAGTGTTGCGCCCACCGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAg                                                                      >  1:614616/1‑99 (MQ=255)
                         aGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAg                                                                      >  1:1079014/1‑99 (MQ=255)
                          gAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGc                                                                     >  1:504977/1‑99 (MQ=255)
                           aaTTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCg                                                                    >  2:615011/1‑99 (MQ=255)
                            aTTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCgg                                                                   >  1:499849/1‑99 (MQ=255)
                               cATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAg                                                                >  2:2166175/1‑99 (MQ=255)
                                 tAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGc                                                              >  2:1607828/1‑99 (MQ=255)
                                   gtgtTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGcac                                                            >  1:316754/1‑99 (MQ=255)
                                   gtgtTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGcac                                                            >  2:706520/1‑99 (MQ=255)
                                   gtgtTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGcac                                                            >  2:1203310/1‑99 (MQ=255)
                                    tgtTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGcaca                                                           >  1:441117/1‑99 (MQ=255)
                                    tgtTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGcaca                                                           <  1:2197732/99‑1 (MQ=255)
                                    tgtTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGcaca                                                           <  1:748205/99‑1 (MQ=255)
                                     gtTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCAcaa                                                          >  2:1456507/1‑99 (MQ=255)
                                      ttGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCAcaac                                                         >  2:1639451/1‑99 (MQ=255)
                                      ttGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCAcaac                                                         <  1:1703237/99‑1 (MQ=255)
                                         cgcCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCAcaaccaa                                                      <  2:1382820/99‑1 (MQ=255)
                                             cAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGc                                                  >  2:345568/1‑99 (MQ=255)
                                             cAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGc                                                  >  1:765995/1‑99 (MQ=255)
                                              aaCGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCg                                                 <  1:1552567/99‑1 (MQ=255)
                                              aaCGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCg                                                 <  2:900055/99‑1 (MQ=255)
                                                 gCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGc                                              <  1:1317986/99‑1 (MQ=255)
                                                 gCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGc                                              <  2:777709/99‑1 (MQ=255)
                                                 gCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGc                                              <  2:1566354/99‑1 (MQ=255)
                                                  cAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGcc                                             >  1:98716/1‑99 (MQ=255)
                                                  cAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGcc                                             >  2:2028129/1‑99 (MQ=255)
                                                   aGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCACCTGCGTGCCg                                            >  2:644709/1‑99 (MQ=255)
                                                    gACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGt                                           >  2:700560/1‑99 (MQ=255)
                                                      ccTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGtcc                                         <  1:1840134/99‑1 (MQ=255)
                                                       cTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGtcct                                        <  1:175278/99‑1 (MQ=255)
                                                        tGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGtcctc                                       >  2:830614/1‑99 (MQ=255)
                                                         gCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGtcctcc                                      <  1:1349630/99‑1 (MQ=255)
                                                           ctctTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAg                                    <  2:1214930/99‑1 (MQ=255)
                                                           ctctTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAg                                    <  1:1883735/99‑1 (MQ=255)
                                                            tctTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGt                                   <  2:2141071/99‑1 (MQ=255)
                                                              ttCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTg                                 <  2:2182610/99‑1 (MQ=255)
                                                                  gCAGCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGt                             >  1:812097/1‑99 (MQ=255)
                                                                     gCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTg                          >  1:1375964/1‑99 (MQ=255)
                                                                     gCCTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTg                          <  1:667626/99‑1 (MQ=255)
                                                                      ccTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGt                         <  2:1874143/99‑1 (MQ=255)
                                                                      ccTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGt                         <  2:1416875/99‑1 (MQ=255)
                                                                      ccTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGt                         <  1:858386/99‑1 (MQ=255)
                                                                      ccTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGt                         >  2:413900/1‑99 (MQ=255)
                                                                       cTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTc                        <  1:2082692/99‑1 (MQ=255)
                                                                       cTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTc                        >  1:1756670/1‑99 (MQ=255)
                                                                       cTCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTc                        <  1:1794920/99‑1 (MQ=255)
                                                                        tCGTTGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCg                       >  2:632316/1‑99 (MQ=255)
                                                                           ttGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGtc                    >  2:416386/1‑99 (MQ=255)
                                                                            tGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGtca                   <  1:1915928/99‑1 (MQ=255)
                                                                            tGGAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGtca                   <  1:490716/99‑1 (MQ=255)
                                                                             ggAGTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGtcat                  >  2:914787/1‑99 (MQ=255)
                                                                                gTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCaa               <  1:214830/99‑1 (MQ=255)
                                                                                gTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCaa               <  2:121471/99‑1 (MQ=255)
                                                                                gTAGAGAGAGATCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCaa               <  1:1390252/99‑1 (MQ=255)
                                                                                   gagagagaTCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACAt            >  2:933551/1‑99 (MQ=255)
                                                                                     gagagaTCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATAc          >  2:1759507/1‑99 (MQ=255)
                                                                                      agagaTCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACg         <  2:431235/99‑1 (MQ=255)
                                                                                         gaTCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCAc      >  2:1982727/1‑99 (MQ=255)
                                                                                          aTCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACt     >  2:362510/1‑99 (MQ=255)
                                                                                          aTCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACt     <  2:2025622/99‑1 (MQ=255)
                                                                                          aTCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACt     <  2:1490303/99‑1 (MQ=255)
                                                                                           tCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACtt    >  2:589563/1‑99 (MQ=255)
                                                                                           tCCCCTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACtt    <  2:1421731/99‑1 (MQ=255)
                                                                                            ccccTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTc   >  2:59432/1‑99 (MQ=255)
                                                                                             cccTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCg  >  2:1176617/1‑99 (MQ=255)
                                                                                             cccTGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCg  <  1:1759756/99‑1 (MQ=255)
                                                                                                |                                                                                               
AGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCAGCTCACGGTAGATCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCG  >  NC_000913/3535522‑3535713

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A