Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F2 I199 R1 220 57.5 3163680 97.0% 3068769 86.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NZ_CP009273 4,073,163 A→T D26V (GAT→GTT)  BW25113_RS20185 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092734,073,1630AT100.0% 373.8 / NA 95D26V (GAT→GTT) BW25113_RS20185hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (50/45);  total (50/45)

GATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAA  >  NZ_CP009273/4073080‑4073249
                                                                                   |                                                                                      
gaTATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGa                                                                                  <  1:790446/90‑1 (MQ=255)
gaTATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGa                                                                                  >  1:45202/1‑90 (MQ=255)
gaTATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGa                                                                                  >  2:257461/1‑90 (MQ=255)
     ttATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGc                                                                             <  2:172424/90‑1 (MQ=255)
     ttATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGc                                                                             <  1:135709/90‑1 (MQ=255)
     ttATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGc                                                                             <  1:219039/90‑1 (MQ=255)
       aTGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAg                                                                           <  2:882613/90‑1 (MQ=255)
          aaCTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGt                                                                        <  2:871432/90‑1 (MQ=255)
           aCTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTa                                                                       >  1:601148/1‑90 (MQ=255)
           aCTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTa                                                                       >  1:1270171/1‑90 (MQ=255)
           aCTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTa                                                                       >  2:4417/1‑90 (MQ=255)
           aCTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTa                                                                       >  2:523619/1‑90 (MQ=255)
           aCTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTa                                                                       >  2:777056/1‑90 (MQ=255)
              ctctGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATc                                                                    >  1:1068308/1‑90 (MQ=255)
              ctctGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATc                                                                    >  2:1569152/1‑90 (MQ=255)
              ctctGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATc                                                                    >  1:1441035/1‑90 (MQ=255)
              ctctGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATc                                                                    >  2:822646/1‑90 (MQ=255)
              ctctGGC‑GGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCt                                                                   >  1:636629/1‑90 (MQ=255)
                ctGGCAGGGATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGGGATTAAGCAACTTGGTGTTCTCGAGGCGCAGCGTAATCtt                                                                  >  1:434325/1‑90 (MQ=255)
                      ggTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGt                                                            >  2:656700/1‑90 (MQ=255)
                        tataGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGc                                                          <  2:892710/90‑1 (MQ=255)
                        tataGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGc                                                          <  1:1284838/90‑1 (MQ=255)
                          taGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCgg                                                        <  2:636629/90‑1 (MQ=255)
                          taGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCgg                                                        <  1:221347/90‑1 (MQ=255)
                          taGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCgg                                                        <  1:1301026/90‑1 (MQ=255)
                          taGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCgg                                                        <  1:428422/90‑1 (MQ=255)
                           aGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGa                                                       <  1:721158/90‑1 (MQ=255)
                           aGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGa                                                       <  1:523619/90‑1 (MQ=255)
                           aGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGa                                                       <  1:487785/90‑1 (MQ=255)
                            gATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAc                                                      <  1:822646/90‑1 (MQ=255)
                            gATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAc                                                      <  2:504666/90‑1 (MQ=255)
                             atatGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc                                                     <  2:875015/90‑1 (MQ=255)
                             atatGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc                                                     <  2:1109544/90‑1 (MQ=255)
                             atatGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc                                                     <  1:627581/90‑1 (MQ=255)
                             atatGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc                                                     <  1:715213/90‑1 (MQ=255)
                             atatGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc                                                     <  2:668510/90‑1 (MQ=255)
                              tatGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCt                                                    >  1:877539/1‑90 (MQ=255)
                                tggtcAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc                                                     >  2:1501927/5‑87 (MQ=255)
                                tGGTCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc                                                     <  1:1501927/87‑1 (MQ=255)
                                tGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAt                                                  >  1:425461/1‑90 (MQ=255)
                                tGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAt                                                  >  2:1087786/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGa                                                                                  <  1:902996/57‑1 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGa                                                                                  >  2:863789/1‑57 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGa                                                                                  >  2:902996/1‑57 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGa                                                                                  <  1:863789/57‑1 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGa                                                       >  1:1122267/1‑84 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGa                                                       <  2:1122267/84‑1 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc                                                     >  2:1091454/1‑86 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc                                                     <  1:1091454/86‑1 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  2:1522209/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  1:1460/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  2:663115/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  2:565870/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  2:564023/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  1:1410821/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  1:1250311/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  1:821191/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  1:373242/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  2:1507543/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  2:1498026/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  2:1393650/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  1:576018/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  1:575895/1‑90 (MQ=255)
                                 gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt                                                 >  2:1336321/1‑90 (MQ=255)
                                   gCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTaa                                               <  1:1346991/90‑1 (MQ=255)
                                      gAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCgg                                                        >  2:76085/1‑78 (MQ=255)
                                      gAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCgg                                                        <  1:76085/78‑1 (MQ=255)
                                      gAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAc                                                      >  2:1545854/1‑80 (MQ=255)
                                      gAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAc                                                      <  1:1545854/80‑1 (MQ=255)
                                      gAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAggg                                            >  2:150545/1‑90 (MQ=255)
                                      gAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAggg                                            >  2:1281496/1‑90 (MQ=255)
                                      gAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAggg                                            >  1:894363/1‑90 (MQ=255)
                                      gAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAggg                                            >  1:943173/1‑90 (MQ=255)
                                       aaTTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGa                                           <  1:1007290/90‑1 (MQ=255)
                                       aaTTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGa                                           <  1:1507543/90‑1 (MQ=255)
                                        aattttCTCGATTTTTCCAATGAGGGGAATAAGCAAATTGATGTTCCCGAGGTTCAGGGTAATCTTCCTCGTGCGGACCTATTAAGGGaa                                          <  1:1424390/88‑1 (MQ=255)
                                        aTTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGaa                                          <  1:228707/90‑1 (MQ=255)
                                        aTTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGaa                                          <  1:520040/90‑1 (MQ=255)
                                           ttACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCg                                       >  2:1341092/1‑90 (MQ=255)
                                            tACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCgg                                      >  1:476701/1‑90 (MQ=255)
                                             aCTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGt                                     <  1:915827/90‑1 (MQ=255)
                                             aCTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGt                                     <  2:1410821/90‑1 (MQ=255)
                                             aCTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGt                                     <  2:887940/90‑1 (MQ=255)
                                             aCTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGt                                     <  1:257461/90‑1 (MQ=255)
                                              cTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTa                                    <  2:899684/90‑1 (MQ=255)
                                              cTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTa                                    <  2:360450/90‑1 (MQ=255)
                                              cTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTa                                    <  2:45202/90‑1 (MQ=255)
                                              cTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTa                                    <  1:820106/90‑1 (MQ=255)
                                                  aTTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATc                                >  1:1579569/1‑90 (MQ=255)
                                                  aTTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATc                                <  2:441533/90‑1 (MQ=255)
                                                                  gATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAaatca                >  1:275375/1‑90 (MQ=255)
                                                                         cAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCaa         <  2:894363/90‑1 (MQ=255)
                                                                            cTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACa      >  1:220398/1‑90 (MQ=255)
                                                                            cTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACa      >  2:420763/1‑90 (MQ=255)
                                                                             ttGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAg     >  2:897502/1‑90 (MQ=255)
                                                                               gatgttCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCa   >  2:1561109/1‑90 (MQ=255)
                                                                                atgttCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCaa  <  1:247964/90‑1 (MQ=255)
                                                                                   |                                                                                      
GATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAA  >  NZ_CP009273/4073080‑4073249

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
AAAATGATATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAAGAACCAGTGTTCC  >  NZ_CP009273/4073064‑4073262
                                                                                                   |                                                                                                   
cacgaccgccatcgtcggcagcgtcagatgtgtataagagacagGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGT                                                                                                     <  SRR3722078.121840/56‑1 (MQ=60)
      ATATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGA                                                                                               >  SRR3722078.45735/1‑100 (MQ=60)
        ATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGG                                                                                             <  SRR3722078.1520518/100‑1 (MQ=60)
                cgtcagatgtgtataagagaCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGT                                                                                     <  SRR3722078.875355/80‑1 (MQ=60)
                cgtcagatgtgtataagagaCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGT                                                                                     <  SRR3722078.915109/80‑1 (MQ=60)
                GATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGT                                                                                     <  SRR3722078.800789/100‑1 (MQ=60)
                 ATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTA                                                                                    >  SRR3722078.608100/1‑100 (MQ=60)
                 ATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTA                                                                                    >  SRR3722078.1290323/1‑100 (MQ=60)
                    TTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATC                                                                                 >  SRR3722078.1084421/1‑100 (MQ=60)
                    TTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATC                                                                                 >  SRR3722078.1464493/1‑100 (MQ=60)
                    TTTATGAACTCTCTGGC‑GGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCT                                                                                >  SRR3722078.643943/1‑100 (MQ=60)
                     TTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCT                                                                                <  SRR3722078.137276/100‑1 (MQ=60)
                     TTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCT                                                                                <  SRR3722078.221685/100‑1 (MQ=60)
                      TATGAACTCTCTGGCAGGGATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGGGATTAAGCAACTTGGTGTTCTCGAGGCGCAGCGTAATCTT                                                                               >  SRR3722078.439542/1‑100 (MQ=60)
                                    CAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCT                                                                 >  SRR3722078.889327/1‑100 (MQ=60)
                                      GGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAT                                                               >  SRR3722078.430588/1‑100 (MQ=60)
                                       GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT                                                              >  SRR3722078.582613/1‑100 (MQ=60)
                                       GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT                                                              >  SRR3722078.582738/1‑100 (MQ=60)
                                       GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT                                                              >  SRR3722078.377804/1‑100 (MQ=60)
                                       GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT                                                              >  SRR3722078.1139403/1‑100 (MQ=60)
                                       GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT                                                              >  SRR3722078.1474/1‑100 (MQ=60)
                                       GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT                                                              >  SRR3722078.1433712/1‑100 (MQ=60)
                                       GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT                                                              >  SRR3722078.832055/1‑100 (MQ=60)
                                       GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT                                                              >  SRR3722078.1270107/1‑100 (MQ=60)
                                        TATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTA                                                             <  SRR3722078.1305276/100‑1 (MQ=60)
                                          agGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAG                                                           <  SRR3722078.76981/98‑1 (MQ=60)
                                          TAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAG                                                           <  SRR3722078.224032/100‑1 (MQ=60)
                                          TAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAG                                                           <  SRR3722078.1321769/100‑1 (MQ=60)
                                          TAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAG                                                           <  SRR3722078.433584/100‑1 (MQ=60)
                                           AGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGG                                                          <  SRR3722078.730093/100‑1 (MQ=60)
                                           AGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGG                                                          <  SRR3722078.529810/100‑1 (MQ=60)
                                           AGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGG                                                          <  SRR3722078.493579/100‑1 (MQ=60)
                                            GATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGG                                                         >  SRR3722078.906384/1‑100 (MQ=60)
                                            GATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGG                                                         <  SRR3722078.833538/100‑1 (MQ=60)
                                            GATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGG                                                         >  SRR3722078.956319/1‑100 (MQ=60)
                                            GATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGG                                                         <  SRR3722078.1571038/100‑1 (MQ=60)
                                             ATATGGTCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGA                                                        <  SRR3722078.1526425/100‑1 (MQ=60)
                                             ATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGA                                                        <  SRR3722078.724003/100‑1 (MQ=60)
                                             ATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGA                                                        <  SRR3722078.1108020/100‑1 (MQ=60)
                                             ATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGA                                                        <  SRR3722078.634801/100‑1 (MQ=60)
                                                  GGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGG                                                   >  SRR3722078.482357/1‑100 (MQ=60)
                                                   GCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGT                                                  <  SRR3722078.1368613/100‑1 (MQ=60)
                                                       AATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGAT                                              <  SRR3722078.1532120/100‑1 (MQ=60)
                                                       AATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGAT                                              <  SRR3722078.1022079/100‑1 (MQ=60)
                                                       AATTTT‑CTCGATTTTTCCAATGAGGGGAATAAGCAAATTGATGTTCCCGAGGTTCAGGGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATC                                             <  SRR3722078.1447533/100‑1 (MQ=49)
                                                        ATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATC                                             >  SRR3722078.1605284/1‑100 (MQ=60)
                                                        ATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATC                                             <  SRR3722078.231480/100‑1 (MQ=60)
                                                        ATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATC                                             <  SRR3722078.526195/100‑1 (MQ=60)
                                                             ACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATAC                                        <  SRR3722078.260614/100‑1 (MQ=60)
                                                             ACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATAC                                        <  SRR3722078.928262/100‑1 (MQ=60)
                                                              CTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACC                                       <  SRR3722078.830956/100‑1 (MQ=60)
                                                                        CGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCA                             >  SRR3722078.278732/1‑100 (MQ=60)
                                                                                  GATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACA                   >  SRR3722078.223068/1‑100 (MQ=60)
                                                                                                ATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAAGAACCAGTGC     <  SRR3722078.250985/100‑1 (MQ=60)
                                                                                                  GTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAAGAACCAGTGTTC   >  SRR3722078.123123/1‑100 (MQ=60)
                                                                                                   TTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAAGAACCAGTGTTCC  >  SRR3722078.1043563/1‑100 (MQ=60)
                                                                                                   |                                                                                                   
AAAATGATATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAAGAACCAGTGTTCC  >  NZ_CP009273/4073064‑4073262

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑