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 F1 I1 R1 26 102.0 3326124 78.0% 2594376 98.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA CP002094 1,973,400 G→T A183S (GCC→TCC)  LLNZ_10250 → putative neutral endopeptidase O2

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0020941,973,4000GT100.0% 428.8 / NA 107A183S (GCC→TCC) LLNZ_10250putative neutral endopeptidase O2
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (53/54);  total (53/54)

Only 100 of 107 total aligned reads displayed.

AAAAACATCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTGCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAATTGC  >  CP002094/1973305‑1973494
                                                                                               |                                                                                              
aaaaaCATCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTccc                                                                                             <  2:1164407/99‑1 (MQ=255)
    aCATCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCaaaa                                                                                         <  1:1088905/99‑1 (MQ=255)
     cATCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAAt                                                                                        <  1:62134/99‑1 (MQ=255)
       tCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTc                                                                                      <  2:622297/99‑1 (MQ=255)
          tCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGt                                                                                   <  2:1021479/99‑1 (MQ=255)
          tCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGt                                                                                   >  2:1575671/1‑99 (MQ=255)
              aagaaagaATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCaaa                                                                               >  1:1265955/1‑99 (MQ=255)
              aagaaagaATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCaaa                                                                               <  2:443876/99‑1 (MQ=255)
               agaaagaaTTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAAt                                                                              >  1:645741/1‑99 (MQ=255)
               agaaagaaTTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAAt                                                                              >  1:196579/1‑99 (MQ=255)
               agaaagaaTTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAAt                                                                              >  1:1382692/1‑99 (MQ=255)
                gaaagaaTTTCTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAAtt                                                                             <  2:1265886/99‑1 (MQ=255)
                gaaagaaTTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAAtt                                                                             >  1:179478/1‑99 (MQ=255)
                  aagaaTTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCg                                                                           >  1:1027217/1‑99 (MQ=255)
                   agaaGTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGa                                                                          <  1:1574539/99‑1 (MQ=255)
                    gaaTTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGAt                                                                         >  1:522232/1‑99 (MQ=255)
                     aaTTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCTCAAAATTCCGTCAAATTCGATg                                                                        >  1:1528757/1‑99 (MQ=255)
                      aTTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGa                                                                       <  1:1656770/99‑1 (MQ=255)
                      aTTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGa                                                                       >  2:1621551/1‑99 (MQ=255)
                       ttACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAg                                                                      <  2:196579/99‑1 (MQ=255)
                       ttACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAg                                                                      >  2:1149218/1‑99 (MQ=255)
                       ttACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAg                                                                      >  1:1661713/1‑99 (MQ=255)
                       ttACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAg                                                                      <  2:645741/99‑1 (MQ=255)
                        tACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGc                                                                     <  2:856230/99‑1 (MQ=255)
                         aCTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCt                                                                    <  1:200862/99‑1 (MQ=255)
                             gATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTa                                                                >  2:1006775/1‑99 (MQ=255)
                             gATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTa                                                                <  1:1276030/99‑1 (MQ=255)
                             gATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTa                                                                <  1:1246712/99‑1 (MQ=255)
                              aTTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAg                                                               >  1:1335908/1‑99 (MQ=255)
                              aTTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAg                                                               <  2:1287037/99‑1 (MQ=255)
                               tttttGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGt                                                              >  1:977448/1‑99 (MQ=255)
                               tttttGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGt                                                              >  1:142241/1‑99 (MQ=255)
                               tttttGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGt                                                              <  1:496174/99‑1 (MQ=255)
                                ttttGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGtt                                                             <  2:1196655/99‑1 (MQ=255)
                                 tttGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTc                                                            <  1:1534916/99‑1 (MQ=255)
                                 tttGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTc                                                            <  1:811731/99‑1 (MQ=255)
                                 tttGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTc                                                            <  2:565947/99‑1 (MQ=255)
                                  ttGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTcc                                                           <  2:19546/99‑1 (MQ=255)
                                   tGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCg                                                          <  2:1335908/99‑1 (MQ=255)
                                     gACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTc                                                        >  2:784590/1‑99 (MQ=255)
                                      aCGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCa                                                       >  2:1351470/1‑99 (MQ=255)
                                      aCGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCa                                                       >  2:1351468/1‑99 (MQ=255)
                                      aCGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCa                                                       >  1:381895/1‑99 (MQ=255)
                                         aaaaaTACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCa                                                    >  2:1102868/1‑99 (MQ=255)
                                         aaaaaTACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCa                                                    >  2:726830/1‑99 (MQ=255)
                                          aaaaTACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCaa                                                   >  1:876865/1‑99 (MQ=255)
                                            aaTACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAAt                                                 >  2:863933/1‑99 (MQ=255)
                                             aTACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATa                                                <  1:1209027/99‑1 (MQ=255)
                                             aTACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATa                                                <  2:469647/99‑1 (MQ=255)
                                              tACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATAc                                               <  2:411047/99‑1 (MQ=255)
                                              tACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATAc                                               <  1:83510/99‑1 (MQ=255)
                                              tACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATAc                                               >  2:1491094/1‑99 (MQ=255)
                                                cTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACtt                                             >  1:569892/1‑99 (MQ=255)
                                                cTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACtt                                             <  1:1080845/99‑1 (MQ=255)
                                                  gCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCt                                           <  2:1041050/99‑1 (MQ=255)
                                                     gAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGaa                                        <  2:762279/99‑1 (MQ=255)
                                                       aaTTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAaga                                      >  2:490293/1‑99 (MQ=255)
                                                       aaTTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAaga                                      >  1:1354275/1‑99 (MQ=255)
                                                        aTTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAagag                                     <  2:233205/99‑1 (MQ=255)
                                                        aTTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAagag                                     >  1:957729/1‑99 (MQ=255)
                                                          tttAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTg                                   >  1:71106/1‑99 (MQ=255)
                                                          tttAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTg                                   >  1:1511328/1‑99 (MQ=255)
                                                             aGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGc                                >  2:91618/1‑99 (MQ=255)
                                                              gCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCa                               >  1:1206137/1‑99 (MQ=255)
                                                                   cTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAata                          <  2:811653/99‑1 (MQ=255)
                                                                   cTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAata                          <  1:1167506/99‑1 (MQ=255)
                                                                   cTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAata                          >  2:1091213/1‑99 (MQ=255)
                                                                    tttGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAatat                         <  1:742395/99‑1 (MQ=255)
                                                                    tttGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAatat                         <  1:1165870/99‑1 (MQ=255)
                                                                     ttGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATg                        >  1:892810/1‑99 (MQ=255)
                                                                     ttGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATg                        <  2:396892/99‑1 (MQ=255)
                                                                      tGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGc                       <  1:260096/99‑1 (MQ=255)
                                                                       gAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCt                      <  2:1217481/99‑1 (MQ=255)
                                                                        aaGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTg                     >  1:726825/1‑99 (MQ=255)
                                                                         aGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGa                    <  2:341962/99‑1 (MQ=255)
                                                                           tGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGc                  <  1:289148/99‑1 (MQ=255)
                                                                           tGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGc                  <  2:1502537/99‑1 (MQ=255)
                                                                            ggAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCt                 <  2:1148783/99‑1 (MQ=255)
                                                                            ggAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCt                 >  1:922666/1‑99 (MQ=255)
                                                                            ggAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCt                 <  1:1439165/99‑1 (MQ=255)
                                                                            ggAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCt                 >  2:1559675/1‑99 (MQ=255)
                                                                            ggAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCt                 <  2:1603504/99‑1 (MQ=255)
                                                                              aaaaTGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCttt               <  2:1496991/99‑1 (MQ=255)
                                                                               aaaTGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTa              <  2:438330/99‑1 (MQ=255)
                                                                               aaaTGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTa              <  2:479364/99‑1 (MQ=255)
                                                                               aaaTGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTa              <  1:74218/99‑1 (MQ=255)
                                                                                 aTGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTatc            >  2:159817/1‑99 (MQ=255)
                                                                                 aTGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTatc            >  1:260974/1‑99 (MQ=255)
                                                                                 aTGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTatc            >  2:389192/1‑99 (MQ=255)
                                                                                  tGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTatca           >  1:418052/1‑99 (MQ=255)
                                                                                  tGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGATTTTAGTTCTGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGATGAGCTTTatca           >  1:415772/1‑99 (MQ=21)
                                                                                   gCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTatcat          <  2:1138346/99‑1 (MQ=255)
                                                                                    cTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTatcatc         >  2:499060/1‑99 (MQ=255)
                                                                                       aagaaATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCaa      >  1:1331576/1‑99 (MQ=255)
                                                                                        agaaATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCTGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAAt     <  2:236828/99‑1 (MQ=255)
                                                                                        agaaATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATTCTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAAt     <  2:1559972/99‑1 (MQ=255)
                                                                                        agaaATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAAt     >  2:1207856/1‑99 (MQ=255)
                                                                                           aaTTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAATTGc  <  2:1528757/99‑1 (MQ=255)
                                                                                           aaTTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAATTGc  <  1:212335/99‑1 (MQ=255)
                                                                                           aaTTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAATTGc  <  2:1123688/99‑1 (MQ=255)
                                                                                               |                                                                                              
AAAAACATCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTGCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAATTGC  >  CP002094/1973305‑1973494

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GATGAAAAACATCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTGCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAATTGCTACT  >  CP002094/1973301‑1973498
                                                                                                   |                                                                                                  
GATGAAAAACATCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTT                                                                                                    >  SRR7892090.1156327/1‑100 (MQ=60)
        ACATCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAAT                                                                                            <  SRR7892090.1096318/100‑1 (MQ=60)
         CATCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATT                                                                                           <  SRR7892090.62692/100‑1 (MQ=60)
             CTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGT                                                                                       >  SRR7892090.345303/1‑100 (MQ=60)
                 AAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAA                                                                                   >  SRR7892090.1273802/1‑100 (MQ=60)
                  AAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAAT                                                                                  >  SRR7892090.198389/1‑100 (MQ=60)
                  AAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAAT                                                                                  >  SRR7892090.1390758/1‑100 (MQ=60)
                  AAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAAT                                                                                  >  SRR7892090.651192/1‑100 (MQ=60)
                   AGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATT                                                                                 >  SRR7892090.181105/1‑100 (MQ=60)
                     AAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCG                                                                               >  SRR7892090.1034422/1‑100 (MQ=60)
                       AGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGAT                                                                             >  SRR7892090.526989/1‑100 (MQ=60)
                       AGAAGTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGAT                                                                             <  SRR7892090.1584307/100‑1 (MQ=60)
                        GAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCTCAAAATTCCGTCAAATTCGATG                                                                            >  SRR7892090.1538075/1‑100 (MQ=60)
                         AATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGA                                                                           >  SRR7892090.877318/1‑100 (MQ=60)
                          ATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAG                                                                          <  SRR7892090.1667352/100‑1 (MQ=60)
                          ATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAG                                                                          >  SRR7892090.1672346/1‑100 (MQ=60)
                             ACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTT                                                                       <  SRR7892090.202716/100‑1 (MQ=60)
                                 GATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAG                                                                   >  SRR7892090.1343900/1‑100 (MQ=60)
                                 GATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAG                                                                   <  SRR7892090.1283892/100‑1 (MQ=60)
                                 GATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAG                                                                   <  SRR7892090.1254528/100‑1 (MQ=60)
                                  ATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGT                                                                  >  SRR7892090.143484/1‑100 (MQ=60)
                                  ATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGT                                                                  >  SRR7892090.984513/1‑100 (MQ=60)
                                   TTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTT                                                                 <  SRR7892090.500659/100‑1 (MQ=60)
                                     TTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCC                                                               <  SRR7892090.1544301/100‑1 (MQ=60)
                                     TTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCC                                                               <  SRR7892090.818166/100‑1 (MQ=60)
                                         GACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCA                                                           >  SRR7892090.385641/1‑100 (MQ=60)
                                             AAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGgtttttgttttttacaaca                                                       >  SRR7892090.367890/1‑81 (MQ=60)
                                             AAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAA                                                       >  SRR7892090.883568/1‑100 (MQ=60)
                                                 ATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATAC                                                   <  SRR7892090.1216758/100‑1 (MQ=60)
                                                  TACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACT                                                  <  SRR7892090.84237/100‑1 (MQ=60)
                                                   ACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTT                                                 >  SRR7892090.575035/1‑100 (MQ=60)
                                                    CTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTC                                                <  SRR7892090.1088232/100‑1 (MQ=60)
                                                          AAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGA                                          >  SRR7892090.1362301/1‑100 (MQ=60)
                                                           AATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAG                                         >  SRR7892090.964740/1‑100 (MQ=60)
                                                            ATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGT                                        >  SRR7892090.1439357/1‑100 (MQ=60)
                                                             TTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTG                                       >  SRR7892090.71728/1‑100 (MQ=60)
                                                             TTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTG                                       >  SRR7892090.1520474/1‑100 (MQ=60)
                                                                 AGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCA                                   >  SRR7892090.1213864/1‑100 (MQ=60)
                                                                       CTTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATAT                             <  SRR7892090.1175117/100‑1 (MQ=60)
                                                                        TTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATG                            >  SRR7892090.899566/1‑100 (MQ=60)
                                                                        TTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATG                            <  SRR7892090.748477/100‑1 (MQ=60)
                                                                        TTTGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATG                            <  SRR7892090.1173474/100‑1 (MQ=60)
                                                                          TGAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCT                          <  SRR7892090.262592/100‑1 (MQ=60)
                                                                           GAAGTGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTG                         >  SRR7892090.732858/1‑100 (MQ=60)
                                                                               TGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCT                     >  SRR7892090.929525/1‑100 (MQ=60)
                                                                               TGGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCT                     <  SRR7892090.291909/100‑1 (MQ=60)
                                                                                GGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGgaaaaaaaacagaggtg                    >  SRR7892090.1529402/1‑83 (MQ=60)
                                                                                GGAAAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTT                    <  SRR7892090.1447584/100‑1 (MQ=60)
                                                                                   AAATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTAT                 <  SRR7892090.74868/100‑1 (MQ=60)
                                                                                    AATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATC                >  SRR7892090.263480/1‑100 (MQ=60)
                                                                                     ATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCA               >  SRR7892090.422110/1‑100 (MQ=60)
                                                                                     ATGCTGAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGATTTTAGTTCTGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGATGAGCTTTATCA               >  SRR7892090.419814/1‑100 (MQ=60)
                                                                                          GAAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAA          >  SRR7892090.1339553/1‑100 (MQ=60)
                                                                                           AAGAAATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTcttcgtcaaaa         >  SRR7892090.984698/1‑89 (MQ=60)
                                                                                               AATTTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAATTGCT     <  SRR7892090.214323/100‑1 (MQ=60)
                                                                                                  TTCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAATTGCTACT  <  SRR7892090.324151/100‑1 (MQ=60)
                                                                                                   |                                                                                                  
GATGAAAAACATCCTCGAAAGAAAGAATTACTTGATTTTTGGACGAAAAATACTGCAGAAATTTTAGCTCGCTTTGAAGTGGAAAATGCTGAAGAAATTGCCCAAAATTCCGTCAAATTCGATGAGCTTTTAGTTCCGTCAGCAAATACTTCTGAAGAGTGGGCAAAATATGCTGAGCTTTATCATCCAATTGCTACT  >  CP002094/1973301‑1973498

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑