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
A7 F422 I53 R1 229 158.0 8090706 91.1% 7370633 100.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 199,001 T→G D358E (GAT→GAG)  bamA → BamABCDE complex OM biogenesis outer membrane pore‑forming assembly factor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913199,0010TG98.6% 502.2 / ‑3.0 147D358E (GAT→GAG) bamABamABCDE complex OM biogenesis outer membrane pore‑forming assembly factor
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base G (69/76);  total (70/77)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.21e-01

Only 100 of 147 total aligned reads displayed.

CCGAAATTAACGATGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGATACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGAGCGTCTGAA  >  NC_000913/198904‑199096
                                                                                                 |                                                                                               
 cGAAATTAACGATGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGAcc                                                                                              >  1:2777771/1‑100 (MQ=255)
 cGAAATTAACGATGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGAcc                                                                                              <  1:1626665/100‑1 (MQ=255)
   aaaTTAACGATGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTc                                                                                            >  1:1028523/1‑100 (MQ=255)
   aaaTTAACGATGCCGACAAAACCGTTAAATTACGTGTGAACGGTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTc                                                                                            <  2:2888708/100‑1 (MQ=255)
       tAACGATGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGaaa                                                                                        >  2:3827930/1‑100 (MQ=255)
        aaCGATGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAg                                                                                       <  2:2966293/100‑1 (MQ=255)
        aaCGATGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAg                                                                                       <  2:1826123/100‑1 (MQ=255)
          cGATGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGAt                                                                                     <  1:974675/100‑1 (MQ=255)
           gATGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATg                                                                                    >  1:421701/1‑100 (MQ=255)
             tGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGcc                                                                                  >  1:965450/1‑100 (MQ=255)
              gCCGGCAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCg                                                                                 >  2:3403876/1‑100 (MQ=255)
                cGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTc                                                                               >  1:3431640/1‑100 (MQ=255)
                     aaaCCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCg                                                                          >  2:3741409/1‑100 (MQ=255)
                        cccttAAATTACGTGTGAACGTTGCTGCGGGTAACCGTTTCTCCGTGCGTAAGAACCGTTTTTAGGGTACCGCGACCTCGCATGATGCCGTCCTCCCTcg                                                                       >  2:2647349/4‑100 (MQ=255)
                        ccGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTcg                                                                       >  2:427805/1‑100 (MQ=255)
                        ccGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTcg                                                                       <  1:3350789/100‑1 (MQ=255)
                              aaTTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAAt                                                                 <  1:3061055/100‑1 (MQ=255)
                              aaTTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAAt                                                                 <  1:4046089/100‑1 (MQ=255)
                               aTTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGTCGTCCTGCGTCGCGAAATg                                                                <  1:3480658/100‑1 (MQ=255)
                               aTTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATg                                                                <  1:1794189/100‑1 (MQ=255)
                               aTTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATg                                                                <  1:3177513/100‑1 (MQ=255)
                               aTTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATg                                                                <  2:2888832/100‑1 (MQ=255)
                                 tACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCg                                                              <  1:1194495/100‑1 (MQ=255)
                                 tACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCg                                                              <  2:2909452/100‑1 (MQ=255)
                                   cGTGTGAACGTGGATGCGGGTAACCGTTTCTACGGGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTc                                                            <  2:2275711/100‑1 (MQ=255)
                                    gtgtGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCa                                                           <  1:1347812/100‑1 (MQ=255)
                                       tgAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGAt                                                        >  2:195638/1‑100 (MQ=255)
                                       tgAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGAt                                                        >  1:3058489/1‑100 (MQ=255)
                                        gAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGCAAGATGCCGTCCTGCGTCCCGAAATGCGTCAGATg                                                       >  2:1993390/1‑100 (MQ=255)
                                         aaCGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATgg                                                      <  2:3246572/100‑1 (MQ=255)
                                          aCGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGa                                                     >  2:2677539/1‑100 (MQ=255)
                                           cGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGaa                                                    >  2:2478434/1‑100 (MQ=255)
                                           cGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGaa                                                    >  2:654318/1‑100 (MQ=255)
                                           cGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGaa                                                    >  2:1555542/1‑100 (MQ=255)
                                            gTTGCTGCGGGTAACCGTTTCTACGTGCGTAAAATCCGTTTTGAACGTAACGAGACCCCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAg                                                   <  2:3695520/100‑1 (MQ=255)
                                            gTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAg                                                   >  1:2348687/1‑100 (MQ=255)
                                            cttGCTGCGGGTAACCGCTTCTACGTGCGTAACATCCGTTTTGACGGTCCCGAGACCTCGAAAGATGCCGTCCTGTGTCGCGAAATGCGTCGGATAGaac                                                   <  2:3695602/99‑2 (MQ=255)
                                               gATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTg                                                >  1:3146007/1‑100 (MQ=255)
                                               gATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCCCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTg                                                <  2:166607/100‑1 (MQ=255)
                                                aTGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGc                                               <  1:1066254/100‑1 (MQ=255)
                                                aTGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGc                                               <  2:2570112/100‑1 (MQ=255)
                                                 tGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTACa                                              <  1:2996837/100‑1 (MQ=255)
                                                 tGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGACGCGAAATGCGTCAGATGGAAGGTGCa                                              >  2:3825565/1‑100 (MQ=255)
                                                   cGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATg                                            >  1:3197652/1‑100 (MQ=255)
                                                      gTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGAGGCCGTGCTGCGTCGCGAAAGGCGTCAGATGGAAGGTGCATGGcn                                         <  2:1553806/100‑2 (MQ=255)
                                                       tAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTg                                        <  1:2645339/100‑1 (MQ=255)
                                                         aCCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTggg                                      >  1:1468621/1‑100 (MQ=255)
                                                         aCCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTggg                                      >  2:439357/1‑100 (MQ=255)
                                                          ccGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTgggg                                     <  2:847955/100‑1 (MQ=255)
                                                          ccGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTgggg                                     <  1:3637655/100‑1 (MQ=255)
                                                          ccGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTgggg                                     >  2:3588467/1‑100 (MQ=255)
                                                          ccGTTTCTACGTGCGTAAGATACGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAAACCGTCAGATGGAAGGTGCATGGCTgggg                                     >  2:134241/1‑100 (MQ=255)
                                                            gTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGATACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAg                                   <  1:112437/100‑1 (MQ=255)
                                                            gTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAg                                   <  2:2451833/100‑1 (MQ=255)
                                                            gTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAg                                   >  1:549755/1‑100 (MQ=255)
                                                            gTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAg                                   <  2:1839202/100‑1 (MQ=255)
                                                             tttCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGc                                  <  2:1869889/100‑1 (MQ=255)
                                                              ttCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCg                                 <  1:1556973/100‑1 (MQ=255)
                                                              ttCTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCGGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCg                                 <  2:2482063/100‑1 (MQ=255)
                                                                cTACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGAt                               >  1:1683412/1‑100 (MQ=255)
                                                                cTACGTGCGTAAGAACCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGGAGGTGCATGGCTGGGGAGCggt                               >  2:87912/1‑98 (MQ=255)
                                                                 tACGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATc                              >  1:1625624/1‑100 (MQ=255)
                                                                  aCGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCt                             <  2:3162614/100‑1 (MQ=255)
                                                                  aCGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCt                             <  1:759095/100‑1 (MQ=255)
                                                                  aCGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGGCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCt                             <  2:2329477/100‑1 (MQ=255)
                                                                   cGTGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTg                            <  2:2069075/100‑1 (MQ=255)
                                                                     tGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGt                          >  2:1148563/1‑100 (MQ=255)
                                                                     tGCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGt                          <  2:285326/100‑1 (MQ=255)
                                                                      gCGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGACGCCGTCCTGCGTCACGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTc                         >  2:3076756/1‑100 (MQ=255)
                                                                      gCGTAAGATCCGTTATGAAGGTAAAACGGGCTAGGAAGATGCCGTCCTGCGTCGCGAGATGCGTCAGATTGAAGATGCGTGGCTGGGGTTTGATTTGGTc                         <  2:713745/100‑1 (MQ=255)
                                                                       cGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCg                        <  1:1051293/100‑1 (MQ=255)
                                                                       cGTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCg                        <  1:2896912/100‑1 (MQ=255)
                                                                        gTAAGATCCGTTTTGAAGGTAACGAGCCCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGCTCTAGTCGa                       >  2:2755791/1‑100 (MQ=255)
                                                                        gTAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGa                       >  1:2491143/1‑100 (MQ=255)
                                                                         tAAGATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGAt                      >  2:2170461/1‑100 (MQ=255)
                                                                            gATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAg                   <  2:2538731/100‑1 (MQ=255)
                                                                            gATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAg                   >  1:2350503/1‑100 (MQ=255)
                                                                            gATCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAg                   >  1:2756369/1‑100 (MQ=255)
                                                                             aTCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAgg                  <  1:271675/100‑1 (MQ=255)
                                                                              tCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAggg                 <  1:1773392/100‑1 (MQ=255)
                                                                              tCCGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAggg                 <  1:2180162/100‑1 (MQ=255)
                                                                               ccGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGTGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGt                >  2:3737063/1‑100 (MQ=255)
                                                                               ccGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGt                >  1:2155779/1‑100 (MQ=255)
                                                                               ccGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGt                >  1:786922/1‑100 (MQ=255)
                                                                                cGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGGTCAGGGTa               >  1:1685027/1‑100 (MQ=255)
                                                                                cGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGtg               >  2:1910293/1‑99 (MQ=255)
                                                                                cGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTa               >  2:336607/1‑100 (MQ=255)
                                                                                cGTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTa               <  1:1161973/100‑1 (MQ=255)
                                                                                 gTTTTGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTaa              >  1:36487/1‑100 (MQ=255)
                                                                                  ttttGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTaan             <  2:1655510/100‑2 (MQ=255)
                                                                                  ttttGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAg             <  1:1521971/100‑1 (MQ=255)
                                                                                    ttGAAGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGa           >  1:331109/1‑100 (MQ=255)
                                                                                        aGGTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGAGCGt       <  1:3814497/100‑1 (MQ=255)
                                                                                         ggTAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGAGCGTc      >  1:1186819/1‑100 (MQ=255)
                                                                                           tAACGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGAGCGTCTg    <  1:520907/100‑1 (MQ=255)
                                                                                           gagcGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGAGCGTCTg    <  1:887418/97‑1 (MQ=255)
                                                                                             aCGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGAGCGTCTGaa  <  2:3483201/100‑1 (MQ=255)
                                                                                             aCGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGAGCGTCTGaa  >  1:1829559/1‑100 (MQ=255)
                                                                                             aCGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGAGCGTCTGaa  <  1:2718853/100‑1 (MQ=255)
                                                                                             aCGAGACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGAGCGTCTGaa  >  1:3560167/1‑100 (MQ=255)
                                                                                                 |                                                                                               
CCGAAATTAACGATGCCGACAAAACCGTTAAATTACGTGTGAACGTTGATGCGGGTAACCGTTTCTACGTGCGTAAGATCCGTTTTGAAGGTAACGATACCTCGAAAGATGCCGTCCTGCGTCGCGAAATGCGTCAGATGGAAGGTGCATGGCTGGGGAGCGATCTGGTCGATCAGGGTAAGGAGCGTCTGAA  >  NC_000913/198904‑199096

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A