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
A16 F201 I1 R1 82 135.0 6815619 92.9% 6331710 99.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,595,315 (A)5→4 coding (166/1278 nt) livM ← branched‑chain amino acid ABC transporter permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,595,3110A.96.7% 404.1 / 5.5 92coding (170/1278 nt)livMbranched‑chain amino acid ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base A (2/1);  new base . (44/45);  total (46/46)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 106 total aligned reads displayed.

TTCTGCTTCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGAAAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGCTCCAGTTGCACG  >  NC_000913/3595212‑3595406
                                                                                                   |                                                                                               
ttCTGCTTCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGgaaga                                                                                                 >  1:2511519/1‑100 (MQ=255)
 tCTGCTTCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGgaagaa                                                                                                >  2:179033/1‑100 (MQ=255)
  cTGCTTCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGaaa                                                                                               <  2:1022194/100‑1 (MQ=255)
   tGCTTCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGC‑TTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGaaaag                                                                                             <  2:1381575/100‑2 (MQ=255)
    gCTTCACCGTGGAGCCATCAATGGCGGGCAGAATGAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGaaaag                                                                                             >  1:1815251/1‑99 (MQ=255)
    gCTTCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGTAGaaaag                                                                                             <  2:1790129/100‑2 (MQ=255)
    gCTTCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGaaaag                                                                                             >  2:1561682/1‑99 (MQ=255)
     cTTCACCGTGGAGCCATCCATGGCGGGCAGACTAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGGAAGCCGGTCGCAAAAGCTGGAAGaaaag                                                                                             >  2:170680/1‑98 (MQ=255)
     cTTCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGaaaaga                                                                                            >  2:2072565/1‑98 (MQ=255)
      ttCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGaaaagac                                                                                           >  1:879481/1‑97 (MQ=255)
      ttCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGaaaagac                                                                                           >  1:544620/1‑97 (MQ=255)
      ttCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGaaaagac                                                                                           >  1:2910332/1‑97 (MQ=255)
       tCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGaaaagacc                                                                                          <  2:3098569/100‑5 (MQ=255)
        cACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGacca                                                                                        <  2:1785786/100‑1 (MQ=255)
        cACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGacca                                                                                        >  2:311418/1‑100 (MQ=255)
          ccGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGaccacc                                                                                      >  2:1999678/1‑100 (MQ=255)
           cGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCAccg                                                                                     <  1:564110/100‑1 (MQ=255)
           cGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCAccg                                                                                     <  1:2343485/100‑1 (MQ=255)
             tGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCAccgcc                                                                                   >  1:1545643/1‑100 (MQ=255)
                 gCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGc                                                                               >  2:1902094/1‑100 (MQ=255)
                 gCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGc                                                                               <  2:1019577/100‑1 (MQ=255)
                  ccATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGcc                                                                              <  2:2041361/100‑1 (MQ=255)
                  ccATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGcc                                                                              <  2:785896/100‑1 (MQ=255)
                  ccATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGcc                                                                              <  1:1843869/100‑1 (MQ=255)
                    aTCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGa                                                                            >  1:1169052/1‑100 (MQ=255)
                    aTCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGa                                                                            >  1:3363830/1‑100 (MQ=255)
                     tCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGAt                                                                           <  1:1561685/100‑1 (MQ=255)
                     tCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGAt                                                                           <  1:1881968/100‑1 (MQ=255)
                     tCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGAt                                                                           <  2:1077135/100‑1 (MQ=255)
                     tCAATGGAGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGGCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGAt                                                                           <  2:1833765/100‑1 (MQ=255)
                       aaTGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATaa                                                                         <  1:2636525/100‑1 (MQ=255)
                         tGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAac                                                                       >  2:3351128/1‑100 (MQ=255)
                           gCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAacac                                                                     <  2:1295996/100‑1 (MQ=255)
                            cGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACAcc                                                                    >  2:1341614/1‑100 (MQ=255)
                              ggCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCa                                                                  >  1:227548/1‑100 (MQ=255)
                               gCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCAc                                                                 >  2:1271972/1‑100 (MQ=255)
                                 aGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTg                                                               <  2:2303423/100‑1 (MQ=255)
                                  gAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACttc                                                              <  1:3146840/100‑3 (MQ=255)
                                  gAATAAACTTCGGTCCGGAAACGCTTTTCAACCCCTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACAcccc                                                                  <  2:1301323/96‑2 (MQ=255)
                                   aaTAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGcc                                                             >  1:2351493/1‑100 (MQ=255)
                                    aTAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAGACGCCCACTGcc                                                             <  2:795777/99‑1 (MQ=255)
                                    aTAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCa                                                            >  2:1602776/1‑100 (MQ=255)
                                    aTAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCa                                                            >  1:1621775/1‑100 (MQ=255)
                                    aTAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCa                                                            >  1:255276/1‑100 (MQ=255)
                                       aaCTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACg                                                         >  2:679897/1‑100 (MQ=255)
                                       aaCTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACg                                                         >  1:342566/1‑100 (MQ=255)
                                       aaCTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACg                                                         >  2:2517197/1‑100 (MQ=255)
                                        aCTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACgg                                                        >  2:167249/1‑100 (MQ=255)
                                           tCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACa                                                     <  1:91811/100‑1 (MQ=255)
                                               tCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCg                                                 <  1:1218018/100‑1 (MQ=255)
                                                 cGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGaa                                               <  1:571121/100‑1 (MQ=255)
                                                  ggAAACGCTTTTCAAGCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAg                                              <  1:3351141/100‑1 (MQ=255)
                                                  ggAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAg                                              <  1:179034/100‑1 (MQ=255)
                                                   gAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGc                                             <  1:1098268/100‑1 (MQ=255)
                                                      aCGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCgt                                          <  2:227547/100‑1 (MQ=255)
                                                        gCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCgtgt                                        >  2:828733/1‑100 (MQ=255)
                                                         cTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGTCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTc                                       <  1:95307/100‑1 (MQ=255)
                                                           tttCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGa                                     >  1:386419/1‑100 (MQ=255)
                                                           tttCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGa                                     >  1:1880155/1‑100 (MQ=255)
                                                            ttCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGac                                    >  1:2209198/1‑100 (MQ=255)
                                                             tCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGacc                                   >  1:1021464/1‑100 (MQ=255)
                                                                aCCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGaccacc                                >  1:3023639/1‑100 (MQ=255)
                                                                  ccTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAg                              >  1:1612644/1‑100 (MQ=255)
                                                                   cTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGAAAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAg                              >  2:2000358/1‑100 (MQ=255)
                                                                   cTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑GAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGt                             >  1:1050139/1‑100 (MQ=255)
                                                                   cTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGt                             >  1:1319915/1‑100 (MQ=255)
                                                                   cTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGt                             >  1:169586/1‑100 (MQ=255)
                                                                     atCTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGttt                           <  1:2494788/99‑1 (MQ=255)
                                                                       cTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTgg                         <  2:883089/100‑1 (MQ=255)
                                                                       cTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTgg                         <  1:3299801/100‑1 (MQ=255)
                                                                       cTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTgg                         >  2:2516494/1‑100 (MQ=255)
                                                                       cTGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTgg                         <  1:2733900/100‑1 (MQ=255)
                                                                        tGGAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGt                        <  2:1319912/100‑1 (MQ=255)
                                                                         ggAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGtttagat                       >  2:2494780/1‑96 (MQ=255)
                                                                         ggAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGt                        >  2:2437110/1‑99 (MQ=255)
                                                                         ggAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTg                       >  2:888727/1‑100 (MQ=255)
                                                                         ggAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTg                       >  1:1887118/1‑100 (MQ=255)
                                                                         ggAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTg                       >  2:2198516/1‑100 (MQ=255)
                                                                          gAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGc                      <  1:2072569/100‑1 (MQ=255)
                                                                          gAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGc                      <  2:342565/100‑1 (MQ=255)
                                                                          gAAAGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGc                      >  1:2461350/1‑100 (MQ=255)
                                                                           cttcgatctCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGt                        <  2:1130936/89‑1 (MQ=255)
                                                                           aaaGCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGACGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGcc                     >  1:2394010/1‑100 (MQ=255)
                                                                              gCCGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCAt                   <  1:623956/99‑1 (MQ=255)
                                                                               ccGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCCACGGACGTCCGAAGCCGTGTCGACCACCAGTTTCGTGCCATcc                 >  2:2161318/1‑100 (MQ=255)
                                                                                cGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCa                <  2:846395/100‑1 (MQ=255)
                                                                                cGGTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCa                <  1:2198522/100‑1 (MQ=255)
                                                                                 ggTCGCAAAAGCTGGAAGAAAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCa                >  2:3070503/1‑100 (MQ=255)
                                                                                 ggTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAg               <  2:2511511/100‑1 (MQ=255)
                                                                                  gTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCGCCAGTTTGGTGCCATCCAGc              <  2:1879788/100‑1 (MQ=255)
                                                                                  gTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGc              >  1:627409/1‑100 (MQ=255)
                                                                                  gTCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGc              <  2:2209192/100‑1 (MQ=255)
                                                                                   tCGCAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGc              <  2:2910321/99‑1 (MQ=255)
                                                                                      cAAAAGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACAGCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGCTCCa          >  2:2384398/1‑100 (MQ=255)
                                                                                       aaaaGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGCTCCAg         >  1:2746071/1‑100 (MQ=255)
                                                                                          aGCTGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGCTCCAGTTg      <  1:828733/100‑1 (MQ=255)
                                                                                           gCTGAAAGAAC‑AGACCACCGCCGTGGCGATAGACACCCCCTGCCAGCGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGCTCCAGTTGc     <  2:2884296/100‑1 (MQ=255)
                                                                                             tGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGCTCCAGTTGCAc   <  2:3363817/100‑1 (MQ=255)
                                                                                             tGGAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGCTCCAGTTGCAc   <  2:1169049/100‑1 (MQ=255)
                                                                                              ggAAG‑AAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGCTCCCGTTGCACg  >  2:3134399/1‑100 (MQ=255)
                                                                                                   |                                                                                               
TTCTGCTTCACCGTGGAGCCATCAATGGCGGGCAGAATAAACTTCGGTCCGGAAACGCTTTTCAACCCTTTCTGGAAAGCCGGTCGCAAAAGCTGGAAGAAAAAGACCACCGCCGTGCCGATAAACACCCACTGCCAACGGACATCCGAAGCCGTGTCGACCACCAGTTTGGTGCCATCCAGCTCCAGTTGCACG  >  NC_000913/3595212‑3595406

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

GATK/CNVnator alignment

N/A