New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 519440 =340 (0.820)18 (0.050) 6/96 NT 5.1% coding (724/4281 nt) rhsD Rhs family putative polymorphic toxin
?CP009273 519532 = 379 (1.060)coding (816/4281 nt) rhsD Rhs family putative polymorphic toxin

Only 100 of 448 total aligned reads displayed.

GCTGACGTACCGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCACCTCTTCGC  >  CP009273/519373‑519506
                                                                   |                                                                  
  ggatacccctgtcggggccgtattcggtaccgggcagtgtgtcggggaacgctgaggctgagagaggg                                                                  >  1:29557026‑M1/66‑68 (MQ=255)
  ggatacccctgtcggggccgtattcggtaccgggcagtgtgtcggggaacgctgaggctgagagaggg                                                                  >  1:12556774‑M1/66‑68 (MQ=255)
  ggataccactgtcggggccgtattcggtaccgggcagtgtgtcggggaacgctgaggctgagagaggg                                                                  >  1:10489557‑M1/66‑68 (MQ=255)
    aCGTACCGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCcgggcg                                                                >  1:6099463/1‑68 (MQ=255)
    aCGTACCGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCcgggcg                                                                >  1:5231012/1‑68 (MQ=255)
    aCGTACCGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCcgggcg                                                                >  1:22950318/1‑68 (MQ=255)
     cGTACCGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCcgggcg                                                                <  1:810426/67‑1 (MQ=255)
      gTACCGGCGTGAGTCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCcgggcggg                                                              <  1:3471846/68‑1 (MQ=255)
      acccctgtcggggccgtattcggtaccgggcagtgtgtcggggaacgctgaggctgagagaGGGCggg                                                              <  1:4630289‑M1/7‑1 (MQ=255)
      acccctgtcggggccgtattcggtaccgggcagtgtgtcggggaacgctgaggctgagagaGGGCggg                                                              >  1:16252344‑M1/62‑68 (MQ=255)
        ccctgtcggggccgtattcggtaccgggcagtgtgtcggggaacgctgaggctgagagaGGGCGGGa                                                             <  1:907219‑M1/8‑1 (MQ=255)
        aCCGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCcgggcgggcg                                                            >  1:18217491/1‑66 (MQ=255)
        aCCGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAg                                                            >  1:27034606/1‑68 (MQ=255)
         cctgtcggggccgtattcggtaccgggcagtgtgtcggggaacgctgaggctgagagaGGGCGGGa                                                             <  1:10041590‑M1/8‑1 (MQ=255)
         cctgtcggggccgtattcggtaccgggcagtgtgtcggggaacgctgaggctgagagaGGGCGGGa                                                             <  1:28783903‑M1/8‑1 (MQ=255)
         cctgtcggggccgtattcggtaccgggcagtgtgtcggggaacgctgaggctgagagaGGGCGGGAGt                                                           >  1:6599882‑M1/59‑68 (MQ=255)
         ccGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGt                                                           <  1:26038012/68‑1 (MQ=255)
         ccGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGt                                                           <  1:3780805/68‑1 (MQ=255)
          cGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGt                                                           >  1:15977858/1‑67 (MQ=255)
           ggCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTc                                                         <  1:34219099/68‑1 (MQ=255)
             cGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCg                                                       >  1:30626174/1‑68 (MQ=255)
             cGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCg                                                       >  1:32611652/1‑68 (MQ=255)
             cGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTACg                                                       >  1:31405725/1‑68 (MQ=255)
              gTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGt                                                      <  1:11813919/68‑1 (MQ=255)
              gTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGt                                                      <  1:14857557/68‑1 (MQ=255)
              gTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGt                                                      <  1:22700458/68‑1 (MQ=255)
                gAGGCCGCCGGTGTCGTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCt                                                    <  1:20577305/68‑1 (MQ=255)
                  ggCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTgg                                                  >  1:10691484/1‑68 (MQ=255)
                   gccgccGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGt                                                 >  1:3090884/1‑68 (MQ=255)
                   gccgccGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGt                                                 >  1:6813705/1‑68 (MQ=255)
                    ccgccgGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTgg                                                  <  1:31873953/66‑1 (MQ=255)
                    acgccgGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGt                                                 >  1:31519282/2‑67 (MQ=255)
                      gccgGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGt                                                 >  1:972804/1‑65 (MQ=255)
                       ccgGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGTGTTCCGTCTGGTGCTg                                             >  1:14382816/1‑68 (MQ=255)
                        ttcggtaccgggcagtgtgtcggggaacgctgaggctgagagaGGGCGGGAGTTCCGTCTGGTGCTGa                                            >  1:11533009‑M1/44‑68 (MQ=255)
                        cgGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTg                                             <  1:23538274/67‑1 (MQ=255)
                        cgGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTg                                             <  1:714972/67‑1 (MQ=255)
                        cgGTGACCTGGCCGGGGAAATCACCGGCGGGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGa                                            <  1:8360556/68‑1 (MQ=255)
                            gACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCAc                                        >  1:17583721/1‑68 (MQ=255)
                              ccTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACg                                       <  1:30267610/67‑1 (MQ=255)
                               cTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCa                                     <  1:13136310/68‑1 (MQ=255)
                                 ggCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAgg                                   <  1:5755318/68‑1 (MQ=255)
                                 ggCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAgg                                   <  1:21826056/68‑1 (MQ=255)
                                 ggCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAgg                                   <  1:1515293/68‑1 (MQ=255)
                                 ggCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAgg                                   <  1:354929/68‑1 (MQ=255)
                                  gCCGGGGAACTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAgg                                   <  1:19608430/67‑1 (MQ=255)
                                   ccGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGgc                                  >  1:2497471/1‑67 (MQ=255)
                                    cGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGgcgc                                >  1:16898914/1‑68 (MQ=255)
                                        gAATTCACCGGCGTGAGGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGc                             <  1:34353894/67‑1 (MQ=255)
                                        gAACTCACCGGCGTGACGGCCGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGc                             <  1:4494193/67‑1 (MQ=255)
                                        gAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGc                             <  1:936106/67‑1 (MQ=255)
                                        gAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGc                             <  1:20806889/67‑1 (MQ=255)
                                        gAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGc                             <  1:27723511/67‑1 (MQ=255)
                                        gAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGc                             <  1:7348288/67‑1 (MQ=255)
                                        gAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCg                            >  1:18798051/1‑68 (MQ=255)
                                        gAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCg                            >  1:2829965/1‑68 (MQ=255)
                                        gAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCg                            >  1:18069143/1‑68 (MQ=255)
                                          gtcggggaacgctgaggctgagagaGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           >  1:19808484‑M1/26‑67 (MQ=255)
                                          gacggggaacgcggcggctgagcgaGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           >  1:18540439‑M1/26‑67 (MQ=255)
                                          caTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:12825813/66‑1 (MQ=255)
                                          aaTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:26698400/67‑1 (MQ=255)
                                          aaTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:33553681/67‑1 (MQ=255)
                                          aaTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:7879283/67‑1 (MQ=255)
                                          aaTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:7002508/67‑1 (MQ=255)
                                          aaTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:14020868/67‑1 (MQ=255)
                                          aaTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:291736/67‑1 (MQ=255)
                                          aaTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:15721016/67‑1 (MQ=255)
                                          aaTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:16340238/67‑1 (MQ=255)
                                          aaTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:28002952/67‑1 (MQ=255)
                                          aaTCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGt                           <  1:27451527/67‑1 (MQ=255)
                                            tCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCg                        <  1:24068015/68‑1 (MQ=255)
                                            tCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCg                        <  1:25603705/68‑1 (MQ=255)
                                            tCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCg                        >  1:26328675/1‑68 (MQ=255)
                                             cACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCgg                       >  1:22191513/1‑68 (MQ=255)
                                              aCCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGa                      <  1:4211622/68‑1 (MQ=255)
                                              aCCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGa                      <  1:3386689/68‑1 (MQ=255)
                                               ccGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGaa                     >  1:34477803/1‑68 (MQ=255)
                                                    gggacggacgGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAgg                 <  1:19140856/65‑1 (MQ=255)
                                                    gTGACGGACGGTGCCTGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAgg                 <  1:19372954/67‑1 (MQ=255)
                                                    gTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAgg                 <  1:17323513/67‑1 (MQ=255)
                                                    gTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAgg                 <  1:13574965/67‑1 (MQ=255)
                                                    gTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAgg                 >  1:24246549/1‑67 (MQ=255)
                                                    gTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAgg                 <  1:24590081/67‑1 (MQ=255)
                                                    gTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAgg                 <  1:32905800/67‑1 (MQ=255)
                                                    gTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAgg                 <  1:28552232/67‑1 (MQ=255)
                                                    gTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGc                <  1:20179559/68‑1 (MQ=255)
                                                      gacggacgGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGccc              <  1:29854713/68‑1 (MQ=255)
                                                        cggacggTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGc            <  1:9555279/68‑1 (MQ=255)
                                                        cggacggTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGc            <  1:33224499/68‑1 (MQ=255)
                                                           acggTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCAcc         <  1:17838107/68‑1 (MQ=255)
                                                            cggTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCAcc         >  1:1086296/1‑67 (MQ=255)
                                                            cggTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCAcc         <  1:17037126/67‑1 (MQ=255)
                                                            cggTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCAcc         <  1:32223789/67‑1 (MQ=255)
                                                             ggTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCAcc         >  1:29407162/1‑66 (MQ=255)
                                                             ggTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCACctc       <  1:25123061/68‑1 (MQ=255)
                                                               tGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCACctct      <  1:31194127/67‑1 (MQ=255)
                                                                gCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCACCTCTTc    <  1:21209282/68‑1 (MQ=255)
                                                                gCCGGGCGGGAGGTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCACCTCTTc    <  1:23734072/68‑1 (MQ=255)
                                                                 ccGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCACCTCTTc    >  1:852830/1‑67 (MQ=255)
                                                                  cgggcgggAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCACCTCTTCGc  <  1:10266645/68‑1 (MQ=255)
                                                                   |                                                                  
GCTGACGTACCGGCGTGAGGCCGCCGGTGACCTGGCCGGGGAAATCACCGGCGTGACGGACGGTGCCGGGCGGGAGTTCCGTCTGGTGCTGACCACGCAGGCGCAGCGTGCGGAAGAGGCCCGCACCTCTTCGC  >  CP009273/519373‑519506

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ 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.