New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 3652912 =561 (1.190)23 (0.060) 8/98 NT 5.2% coding (321/1158 nt) mdtE anaerobic multidrug efflux transporter, ArcA‑regulated
?CP009273 3652940 = 351 (0.850)coding (349/1158 nt) mdtE anaerobic multidrug efflux transporter, ArcA‑regulated

Only 100 of 702 total aligned reads displayed.

GCACCTTTACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGATT  >  CP009273/3652874‑3653006
                                                                  |                                                                  
  aCCTTTACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAAt                                                                  >  1:38918203/1‑67 (MQ=255)
  aCCTTTACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAAt                                                                  >  1:10831425/1‑67 (MQ=255)
  aCCTTTACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAAt                                                                  >  1:38419928/1‑67 (MQ=255)
  aCCTTTACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAAt                                                                  >  1:30257761/1‑67 (MQ=255)
  aCCTTTACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAAt                                                                  >  1:5119245/1‑67 (MQ=255)
  aCCTTTACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAAt                                                                  <  1:13542436/67‑1 (MQ=255)
   ccTTTACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAACGCGCTCTCTACCGCCAGCAATg                                                                 >  1:26474786/1‑67 (MQ=255)
   ccTTTACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATg                                                                 >  1:19327019/1‑67 (MQ=255)
     tttACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGccc                                                              <  1:35952166/68‑1 (MQ=255)
      gatgcctggcggttaaaggtgatgcgggcattGCTGGCGAAAGCGCTCGCGACCGCCAGCAATGccc                                                              <  1:37083559‑M1/35‑1 (MQ=255)
      gatgcctggcggataacggtgaggcgggcattgcgggcggaagagcgcgctttcgccagcAATGCCCg                                                             <  1:5494871‑M2/8‑1 (MQ=255)
       tACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGc                                                            >  1:16217464/1‑68 (MQ=255)
       tACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGc                                                            >  1:4299386/1‑68 (MQ=255)
        aCAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCa                                                           <  1:9156322/68‑1 (MQ=255)
        aCAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCa                                                           >  1:33136170/1‑68 (MQ=255)
          aGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATc                                                         >  1:25366144/1‑68 (MQ=255)
          aGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATc                                                         >  1:20751225/1‑68 (MQ=255)
          aGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATc                                                         >  1:32184975/1‑68 (MQ=255)
          aGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATc                                                         >  1:9575932/1‑68 (MQ=255)
           ggCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCATCAATGCCCGCATc                                                         >  1:27915627/1‑67 (MQ=255)
            tggcggttaaaggtgatgcgggcattgctggcggtagagagcgctttcgccagcAATGCCCGCATCAc                                                       <  1:17268142‑M2/14‑1 (MQ=255)
            tggcgggtaaaggggaagcgggcattgctggcgggagagcccgctttcgccagcAATGCCCGCATCAc                                                       <  1:22525420‑M2/14‑1 (MQ=255)
            gCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCCTCa                                                        >  1:21798606/1‑67 (MQ=255)
            gCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCa                                                        >  1:3463093/1‑67 (MQ=255)
            gCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCa                                                        >  1:119144/1‑67 (MQ=255)
            gCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCa                                                        >  1:14907904/1‑67 (MQ=255)
            gCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCa                                                        >  1:6315691/1‑67 (MQ=255)
            gCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCa                                                        >  1:20976427/1‑67 (MQ=255)
            gCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCa                                                        >  1:3907789/1‑67 (MQ=255)
            gCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCa                                                        >  1:35077499/1‑67 (MQ=255)
            gCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCa                                                        >  1:490439/1‑67 (MQ=255)
             ggcggttaacggtgatgcgggcattgctggcggtagagagcgctttcgccagcAATGCCCGCATCAcc                                                      <  1:34775539‑M2/15‑1 (MQ=255)
             ccGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCa                                                        >  1:34186676/1‑66 (MQ=255)
             ccGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCAc                                                       <  1:24659618/67‑1 (MQ=255)
             ccGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCAc                                                       <  1:2823951/67‑1 (MQ=255)
             ccGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCAc                                                       <  1:26106004/67‑1 (MQ=255)
             ccGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCAc                                                       <  1:11511564/67‑1 (MQ=255)
             ccGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCAc                                                       <  1:12847118/67‑1 (MQ=255)
             ccGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCAc                                                       <  1:19051239/67‑1 (MQ=255)
             ccGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCAc                                                       <  1:1664756/67‑1 (MQ=255)
              gcggttaaaggtgatgcgggcattGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCCCCt                                                     <  1:17050014‑M1/44‑1 (MQ=255)
               gAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCtt                                                    <  1:13242854/68‑1 (MQ=255)
               gAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCtt                                                    <  1:24828567/68‑1 (MQ=255)
                  cTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTa                                                  >  1:17990358/1‑67 (MQ=255)
                      aCTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCg                                              >  1:15512629/1‑67 (MQ=255)
                      aCTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCAGCCCCTTTAACCg                                              >  1:36929035/1‑67 (MQ=255)
                       cTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGcc                                            <  1:21412058/68‑1 (MQ=255)
                        gtgatgcgggcattGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCa                                           <  1:23013648‑M1/54‑1 (MQ=255)
                        gtgatgcgggcattGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCa                                           <  1:14085381‑M1/54‑1 (MQ=255)
                         ccGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAg                                          <  1:33411682/68‑1 (MQ=255)
                            tgcgggcattGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCCCCTTTAACCGCCCGGCa                                       <  1:17727319‑M1/58‑1 (MQ=255)
                             cAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCa                                       >  1:34304353/1‑67 (MQ=255)
                               aaGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCg                                    <  1:32937350/68‑1 (MQ=255)
                                  gCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGtt                                  >  1:5935976/1‑67 (MQ=255)
                                  gCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGtt                                  >  1:30910863/1‑67 (MQ=255)
                                    tCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGc                                <  1:8602909/67‑1 (MQ=255)
                                      GCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGa                             <  1:29438546‑M1/68‑1 (MQ=255)
                                       CTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGaa                            <  1:7858675‑M1/68‑1 (MQ=255)
                                       CTGGCGAAAGCGCTCTCTACCGCAAGCAATGCACGCATCACCTTTAACCGCCAGGCATCGTTGCTGaa                            <  1:23698451‑M1/68‑1 (MQ=255)
                                         GGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGa                          >  1:14550574‑M1/1‑68 (MQ=255)
                                           CGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGAcc                        <  1:30652447‑M1/68‑1 (MQ=255)
                                            ggtacagcgcgctttcgccagcAAGGCCCGCAACACCTTTAACCGCCAGGCATCGTTGCTGAAGACCa                       <  1:6874098‑M2/46‑1 (MQ=255)
                                            GAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGAcc                        >  1:22756168‑M1/1‑67 (MQ=255)
                                            GAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCa                       >  1:29062116‑M1/1‑68 (MQ=255)
                                            GAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCa                       >  1:32451965‑M1/1‑68 (MQ=255)
                                              aaGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCaa                      <  1:36345423/67‑1 (MQ=255)
                                               aGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACt                    <  1:20430809/68‑1 (MQ=255)
                                                gcgcTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACt                    >  1:37149633/1‑67 (MQ=255)
                                                  gcTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTa                   <  1:29608742/66‑1 (MQ=255)
                                                  gcTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTAc                  <  1:29998307/67‑1 (MQ=255)
                                                         aCCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCg          <  1:13863898/68‑1 (MQ=255)
                                                          ccGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCg          >  1:22087571/1‑67 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTCGCCGTCa       >  1:8208011‑M2/7‑68 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCa       >  1:10146008‑M2/7‑68 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCa       >  1:12442117‑M2/7‑68 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCa       >  1:11051746‑M2/7‑68 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCa       <  1:24156225‑M2/62‑1 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCa       >  1:22368003‑M2/7‑68 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCa       >  1:25800113‑M2/7‑68 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCa       >  1:26590883‑M2/7‑68 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCa       >  1:31667938‑M2/7‑68 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCa       >  1:2862392‑M2/7‑68 (MQ=255)
                                                            gccagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACAAAATACGTTAGCCGTCa       >  1:12234078‑M2/7‑68 (MQ=255)
                                                              cagcAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAgg     >  1:16463062‑M2/5‑68 (MQ=255)
                                                              caccAAGGCCCGCCACCCCTTAAACCGCCTGGCAGCGTTGCTGAAGACCAACTACGTTAGCCGTCAgg     <  1:10453508/65‑1 (MQ=255)
                                                                 cAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGAtt  >  1:23253098‑M2/2‑68 (MQ=255)
                                                                  aaTGCCCGCATCTCCTTTAACCGCCAGGCATCGTTCCTGAAGACCAACTAAGTTAGCCGTCAGGa    <  1:2440014/65‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGACGACCAACTACGTTAGCCGTCAGGa    <  1:36606674/65‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGGCCAACTACGTTAGCCGTCAGGa    <  1:8923037/65‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGa    <  1:35485543/65‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGa    <  1:33799134/65‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGa    <  1:27514446/65‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGa    <  1:27115347/65‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGa    <  1:19612372/65‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGAtt  <  1:37621711/67‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGAtt  <  1:35347783/67‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGAtt  <  1:18632263/67‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGAtt  <  1:17505916/67‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCTTAAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGa    <  1:31365187/65‑1 (MQ=255)
                                                                  aaTGCCCGCATCACCATTAACCGCCACGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGAtt  <  1:6181945/67‑1 (MQ=255)
                                                                  |                                                                  
GCACCTTTACAGGCCGAGCTAAACTCCGCCAAAGGCTCGCTGGCGAAAGCGCTCTCTACCGCCAGCAATGCCCGCATCACCTTTAACCGCCAGGCATCGTTGCTGAAGACCAACTACGTTAGCCGTCAGGATT  >  CP009273/3652874‑3653006

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.