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
A12 F204 I0 R1 247 174.3 8556966 94.2% 8060661 99.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 4,105,396 A→T 58.0% L92Q (CTG→CAG)  cpxR ← response regulator in two‑component regulatory system with CpxA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,105,3960AT58.0% 97.3 / 226.3 182L92Q (CTG→CAG) cpxRresponse regulator in two‑component regulatory system with CpxA
Reads supporting (aligned to +/- strand):  ref base A (35/41);  new base T (45/60);  total (81/101)
Fisher's exact test for biased strand distribution p-value = 7.62e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.43e-01

Only 100 of 185 total aligned reads displayed.

TGCTGTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAATGTGTCGATAC  >  NC_000913/4105297‑4105495
                                                                                                   |                                                                                                   
tGCTGTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCa                                                                                                     >  2:3914876/1‑100 (MQ=255)
 gCTGTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAg                                                                                                    <  2:3701187/100‑1 (MQ=255)
 gCTGTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAg                                                                                                    <  2:36090/100‑1 (MQ=255)
  cTGTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGc                                                                                                   <  2:3235553/100‑1 (MQ=255)
  cTGTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGc                                                                                                   >  1:4036658/1‑100 (MQ=255)
   tGTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCt                                                                                                  >  2:2320732/1‑100 (MQ=255)
    gTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTc                                                                                                 >  2:1048029/1‑100 (MQ=255)
    gTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTc                                                                                                 >  2:1186643/1‑100 (MQ=255)
    gTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTc                                                                                                 <  2:1575271/100‑1 (MQ=255)
     ttGTTCGCTCCAGTGCTAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCa                                                                                                <  1:30009/100‑1 (MQ=255)
     ttGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCa                                                                                                <  2:3204362/100‑1 (MQ=255)
      tGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCCCGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCa                                                                                                <  1:352670/99‑1 (MQ=255)
       gctcgctcCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAg                                                                                              >  1:2958605/1‑100 (MQ=255)
        ctcgctcCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGTTCAAgg                                                                                             <  1:2781546/100‑1 (MQ=255)
        ctcgctcCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCaatg                                                                                             <  2:2878970/100‑3 (MQ=255)
        ctcgctcCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAgg                                                                                             >  1:1103464/1‑100 (MQ=255)
        ctcgctcCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAgg                                                                                             <  1:791848/100‑1 (MQ=255)
          cgctcCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGcc                                                                                           >  1:3063797/1‑100 (MQ=255)
            ctcCAGTGCGAACGGCGCAGGATCTCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCg                                                                                          <  1:1013176/99‑1 (MQ=255)
            ctcCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCAGTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCga                                                                                         <  1:2228351/100‑1 (MQ=255)
             tcCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCgag                                                                                        <  1:726074/100‑1 (MQ=255)
               cAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGaa                                                                                      <  1:276987/100‑1 (MQ=255)
                 gTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAAcg                                                                                    <  1:1228496/100‑1 (MQ=255)
                 gTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAAcg                                                                                    >  1:3593308/1‑100 (MQ=255)
                  tGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAAcgc                                                                                   <  2:4184997/100‑1 (MQ=255)
                    cGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACTATCATTAACCGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCgag                                                                                        <  1:908945/93‑1 (MQ=255)
                     gAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGGGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGAt                                                                                <  1:3152941/100‑1 (MQ=255)
                     gAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGAt                                                                                >  2:2526751/1‑100 (MQ=255)
                     gAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGAt                                                                                <  1:2913380/100‑1 (MQ=255)
                      aaCGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATc                                                                               <  1:4181821/100‑1 (MQ=255)
                              aGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCAc                                                                       <  2:3635920/100‑1 (MQ=255)
                               ggATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACt                                                                      <  2:2747387/100‑1 (MQ=255)
                               ggATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACt                                                                      >  2:4090639/1‑100 (MQ=255)
                                   cgcgcgAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCcg                                                                  >  2:1802291/1‑100 (MQ=255)
                                      gcgAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCcgcgc                                                               <  1:3830954/100‑1 (MQ=255)
                                      gcgAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCcgcgc                                                               >  1:3944118/1‑100 (MQ=255)
                                       cgAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCcgcgcg                                                              >  1:3275483/1‑100 (MQ=255)
                                          aTACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCg                                                           <  2:3308384/100‑1 (MQ=255)
                                             cGTGTCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCa                                                        >  1:2208187/1‑100 (MQ=255)
                                             cGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGt                                                          >  1:3329956/1‑98 (MQ=255)
                                             cGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCa                                                        <  2:898489/100‑1 (MQ=255)
                                             cGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCa                                                        >  1:3332690/1‑100 (MQ=255)
                                             cGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCa                                                        >  1:1661807/1‑100 (MQ=255)
                                             cGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCa                                                        >  2:4004447/1‑100 (MQ=255)
                                               tGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAAc                                                      <  2:2656466/100‑1 (MQ=255)
                                                gCCACCAGCTCACGGTCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGCACGCGAACAAGTTCACTGCCGCGCGCCGTCAACa                                                     >  1:56097/1‑100 (MQ=255)
                                                gCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACa                                                     >  1:2581694/1‑100 (MQ=255)
                                                gCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACa                                                     <  2:211092/100‑1 (MQ=255)
                                                gCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACa                                                     <  2:2069880/100‑1 (MQ=255)
                                                  taccaGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATa                                                   >  2:989810/2‑100 (MQ=255)
                                                  caccaGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATa                                                   >  2:2919466/1‑100 (MQ=255)
                                                   accaGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATaa                                                  <  1:1637168/100‑1 (MQ=255)
                                                    ccaGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAAt                                                 <  1:3070604/100‑1 (MQ=255)
                                                    ccaGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAAt                                                 <  2:4049394/100‑1 (MQ=255)
                                                       gCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGAc                                              <  2:2123763/100‑1 (MQ=255)
                                                       gCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCACCGTCAACATAATGAc                                              >  1:2495047/1‑100 (MQ=255)
                                                        cTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAAtagat                                             >  2:1579131/1‑96 (MQ=255)
                                                        cTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACa                                             <  2:1458728/100‑1 (MQ=255)
                                                        cTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCCCCGTCAACATAATGACa                                             >  1:1382132/1‑100 (MQ=255)
                                                        cTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCGCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGAc                                              <  1:100267/99‑1 (MQ=255)
                                                         tCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAg                                            <  2:1696188/100‑1 (MQ=255)
                                                            cGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATCAGAGGCg                                         >  1:4110061/1‑100 (MQ=255)
                                                             gATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGt                                        >  2:189170/1‑100 (MQ=255)
                                                              aTCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTc                                       <  2:2534979/100‑1 (MQ=255)
                                                                naTTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTg                                     >  1:1532876/2‑100 (MQ=255)
                                                                cATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTg                                     >  1:3894502/1‑100 (MQ=255)
                                                                 aTTAAACGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTgg                                    <  2:305607/100‑1 (MQ=255)
                                                                 aTTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTgg                                    >  1:3095739/1‑100 (MQ=255)
                                                                  ttAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGgt                                   >  1:3174809/1‑100 (MQ=255)
                                                                   tAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGgtg                                  <  1:2814721/100‑1 (MQ=255)
                                                                   tAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGgtg                                  <  2:257729/100‑1 (MQ=255)
                                                                      aCGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGgtgtg                                <  1:1883989/99‑1 (MQ=255)
                                                                       cGGTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTc                              >  2:3052918/1‑100 (MQ=255)
                                                                       cGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTc                              <  2:3835090/100‑1 (MQ=255)
                                                                        ggTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCt                             >  2:1245657/1‑100 (MQ=255)
                                                                         gTTTCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTg                            <  1:489788/100‑1 (MQ=255)
                                                                          tttCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTgg                           <  2:2178568/100‑1 (MQ=255)
                                                                           ttCGGGAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTgg                           >  1:2837163/1‑99 (MQ=255)
                                                                              gggAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGaa                       >  1:2344089/1‑100 (MQ=255)
                                                                               ggAGATAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAg                      <  1:1239768/100‑1 (MQ=255)
                                                                               ggAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAg                      <  1:398189/100‑1 (MQ=255)
                                                                               ggAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAg                      <  1:579284/100‑1 (MQ=255)
                                                                               ggAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAg                      >  2:1585438/1‑100 (MQ=255)
                                                                                   aTAGTCATCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCt                  <  2:3105318/100‑1 (MQ=255)
                                                                                    tAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCtt                 <  1:1559612/100‑1 (MQ=255)
                                                                                      gTCATCTGCGCCCTGCTCAACGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCtttt               >  1:2602426/1‑100 (MQ=255)
                                                                                      gTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCtttt               <  1:226952/100‑1 (MQ=255)
                                                                                       tCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTa              <  1:4188596/100‑1 (MQ=255)
                                                                                         aTCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAAt            <  2:2475865/100‑1 (MQ=255)
                                                                                          tCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAAtg           <  2:1685026/100‑1 (MQ=255)
                                                                                          tCTGCGCCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAAtg           <  1:1060242/100‑1 (MQ=255)
                                                                                            tGCGCCCAGCTCAAGGCCGAGAACGCGATAAAGTACACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAAtgtg         <  1:379877/100‑1 (MQ=255)
                                                                                              cgcCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAATGTGTc       <  2:2005586/100‑1 (MQ=255)
                                                                                              cgcCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAATGTGTc       <  1:3416668/100‑1 (MQ=255)
                                                                                               gcCCTGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAATGTGTCg      <  2:573909/100‑1 (MQ=255)
                                                                                               gcCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAATGTGTCg      <  1:92355/100‑1 (MQ=255)
                                                                                                cccAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAATGTGTCGa     >  2:4150662/1‑100 (MQ=255)
                                                                                                cccAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAATGTGTCGa     >  2:44144/1‑100 (MQ=255)
                                                                                                cccAGCTCAAGGCCGAGAACGCGATCAAGTTCACCGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGACGCGCTTTTAATGTGTCg      >  1:1409023/1‑99 (MQ=255)
                                                                                                  cAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAATGTGTCGATa   <  1:368065/100‑1 (MQ=255)
                                                                                                   |                                                                                                   
TGCTGTTGCTCGCTCCAGTGCGAACGGCGCAGGATCGCGCGAATACGTGCCACCAGCTCACGATCATTAAACGGTTTCGGGAGATAGTCATCTGCGCCCAGCTCAAGGCCGAGAACGCGATCAAGTTCACTGCCGCGCGCCGTCAACATAATGACAGGCGTCTGGTGTGTCTGGCGAAGTGCTTTTAATGTGTCGATAC  >  NC_000913/4105297‑4105495

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A