New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 2290110NA (NA)62 (1.350) 39/282 0.2 96.9% intergenic (‑31/+2) insH1/yejO IS5 transposase and trans‑activator/pseudogene, autotransporter outer membrane homology,putative transport, Not classified, putative ATP‑binding component of a transport system
?NC_000913 = 3992708 2 (0.040)coding (1557/2547 nt) cyaA adenylate cyclase

AAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCC  >  NC_000913/2289970‑2290250
                                                                                                                                            |                                                                                                                                            
aaGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGCCGGCGAAGGTAAGTTGATGACTCCTGATGAACCCTGTTCTATGGCTGCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCa                                                                                                                                            <  1:768537/143‑1 (MQ=2)
  gAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCCCCTTCCATa                                                                                                                                          >  1:261836/1‑143 (MQ=17)
     aaTCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGCGACTTGTTCGCACCTTCCATAACg                                                                                                                                       >  2:301384/1‑143 (MQ=18)
                ttctcggACGGCGCGTACTGCTGCCTTTACTGTCGGACAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCCGATGCCCAACATGATCTCATATCCCGGACTTGTTCGCACCTTCCATAACGCTGTAGccacc                                                                                                                            <  2:554685/137‑1 (MQ=14)
                  gTCTGACGGCGCGTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCATCAg                                                                                                                          <  2:534853/143‑1 (MQ=255)
                   gctatcGGCGCATACGGCTGAAGTCACTGTCGGCGAGGTTAAGTCGATGACTAATGATGATCCCTGTTCTATGGCTCCAGAAGACAAACATGATCTCGTGTCAGGGAGTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGa                                                                                                                         <  2:97025/138‑1 (MQ=14)
                    cTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGaa                                                                                                                        <  2:280935/143‑1 (MQ=255)
                     tGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAAc                                                                                                                       >  1:236624/1‑143 (MQ=255)
                         ggCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGGCAGCAGaagggat                                                                                                                   >  1:845/1‑138 (MQ=255)
                              ttcctgcttAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGc                                                                                                              <  2:649283/140‑1 (MQ=255)
                               tACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTACATAACGCTGTAGCCACCAGAACAGATATTGCg                                                                                                             >  2:149032/1‑143 (MQ=255)
                                 ctgctgAATTCACTGGCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACATTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGa                                                                                                           <  2:48125/143‑1 (MQ=255)
                                  tgctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCCTAACGCTGTAGCCCCCACAACAGATCTTGCGGaa                                                                                                          >  1:269635/1‑143 (MQ=255)
                                  tgctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGCTATCGCGGaa                                                                                                          >  2:370537/1‑143 (MQ=255)
                                    ctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGGAGCCACAAGAACAGATATTGCGGAACg                                                                                                        >  2:72374/1‑143 (MQ=255)
                                      gAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATGCCTCGTTATCCACCAGAACAGATATTGCGGAACGAc                                                                                                      >  1:333069/1‑143 (MQ=14)
                                            aCTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATACTGCGGCACGACAAagcg                                                                                                >  2:544846/1‑141 (MQ=255)
                                            aCTGTCGGCGAAGGTAAGTTGATGACTAATGATGAACCCTGTTCTATGGCTCCAGATGACAAAAATGATCTCATATCAGAGACTTGTTTGCAACTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAGCGACcaacaa                                                                                                >  2:777456/1‑140 (MQ=18)
                                             cTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCCTATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACACAgaga                                                                                               >  2:331580/1‑143 (MQ=255)
                                             cTGTCGGAGAAAGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAgaga                                                                                               <  1:537059/143‑1 (MQ=255)
                                                tCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAAc                                                                                            >  1:457834/1‑143 (MQ=255)
                                                tCGGCGAAGGTAACTTGATGACTCATGATGATCCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAAc                                                                                            <  2:186026/143‑1 (MQ=255)
                                                     gAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGaaa                                                                                       <  1:216677/143‑2 (MQ=255)
                                                            aGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTg                                                                                >  1:452690/1‑143 (MQ=255)
                                                               tgatgcCTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATg                                                                             <  2:303648/143‑1 (MQ=255)
                                                                   gccTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATCATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCAtt                                                                         <  2:588151/141‑1 (MQ=255)
                                                                   gaCTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGAAATTGCGGAACGACAAAGAGAAAACGAACCAGATAGATGCaat                                                                         >  2:243085/1‑141 (MQ=255)
                                                                      tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCCGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCCGAtcaacgccgcgga                                                                      >  2:122735/1‑131 (MQ=25)
                                                                      tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAg                                                                      >  2:452736/1‑143 (MQ=255)
                                                                      tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAg                                                                      >  2:151234/1‑143 (MQ=255)
                                                                      tCATGATGAACCCTGTTCTATGGCTCAAGAAGACAGACATGATCTCATATCAGGGACTTGTTCGCACCCACCATCATTGCGGAGCCTGCAGAATAGGGATTGCGGAACGACAAAGAGAAACGGAACCAGATTGATGCATTGAg                                                                      >  2:435643/1‑143 (MQ=18)
                                                                        atgatgAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCt                                                                    >  1:530376/1‑143 (MQ=255)
                                                                        atgatgAACCCTGTTCTATGGCTCCAGATGAAAAACATTATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACGGATGTTACGGAACGACTACGAGAAACATAATCGGATTGATGCATGGAggt                                                                    >  1:67037/1‑141 (MQ=21)
                                                                         tgatgaACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCAGAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCtt                                                                   <  1:233705/143‑1 (MQ=255)
                                                                            tgaACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCa                                                                >  1:107975/1‑143 (MQ=255)
                                                                             gaACCCTGGTCTATGGCTCCAGATGACAAACATGATCTCATATCCGGGACTTCTTCGCACCTTCCACAACGCTGTAGCCACCAGAACAGATACCGCGGAACGACAAAGAGCAACAGGACCAGGTTGATGcctcgaactctcca                                                               >  2:97564/1‑130 (MQ=21)
                                                                                 ccTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGGTGCATTGAGCTTTCATGCTa                                                           >  1:604058/1‑143 (MQ=255)
                                                                                 ccTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTa                                                           >  1:535825/1‑143 (MQ=255)
                                                                                  cTGTTCTAGGGCTCCAGATGCCAAACATGCTCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTAt                                                          <  2:826/143‑1 (MQ=255)
                                                                                   tGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATg                                                         >  1:693117/1‑143 (MQ=255)
                                                                                      tCTATGGCTCCAGATGACAAACGTGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCGTATGaaa                                                      >  1:196197/1‑143 (MQ=255)
                                                                                             cTCCAGACGACAAACATGAGCTCATATCAGGGACTTGTTCACACCTTCCATAACGCTGTAGCCACCATAACAGATATTGCGGAACGACAAAGATAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTg                                               <  2:345485/143‑1 (MQ=255)
                                                                                               gccgATGACCAACATGATGTCATAGCAGGGACGTGTTCGCACCGGCCGTAGAGCTGTAGCCACCAGAACAGATAATGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCt                                             <  2:40228/140‑1 (MQ=255)
                                                                                                             tGATTTCATATCACGGTCTTGTTCGGATTTTTCATAACGTTGTAGCCATCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTgg                               <  1:10219/143‑1 (MQ=255)
                                                                                                             tGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTgg                               >  2:553135/1‑143 (MQ=255)
                                                                                                              gATCCCATATCAGGGACTTGTTCGCACCGTACATACCGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGATAAACCGAACCAGTTTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTggg                              <  1:116327/143‑1 (MQ=255)
                                                                                                                tctcATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGCGAAACAGAACCAGAATGATGCATTGAGCGTGAAGCCTATGAAATTAATTGCTGAGAAAAGCATAGGGTa                            >  1:310327/1‑143 (MQ=255)
                                                                                                                nctcATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGCACAGATATTGCGGAACGCCACAGCGAAACAGAACCAGATTGCTGCATTNAGCTTTCATCCTATGCCATTAATTGCTGTTATAACCAtgtgata                            >  2:309290/2‑137 (MQ=255)
                                                                                                                  tcATATCAGGGACTTGTACGCACCTTCCATAACGCTATAGCGACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCAATGAAATTAATTGCTGTTAAAAGCATTGGATACa                          >  2:486026/1‑143 (MQ=255)
                                                                                                                      atCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGaaa                      >  1:311011/1‑143 (MQ=255)
                                                                                                                      atCAGGGACTTGTTCGCACCTCCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGaaa                      >  2:674567/1‑143 (MQ=255)
                                                                                                                       tCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTGCAGaaaa                     >  2:332401/1‑143 (MQ=255)
                                                                                                                       tCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGaaaa                     <  1:149032/143‑1 (MQ=255)
                                                                                                                             aCTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCa               <  1:326423/143‑1 (MQ=255)
                                                                                                                               ttGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGCACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATa             >  1:220003/1‑143 (MQ=255)
                                                                                                                                  ttCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATAACCATAGCt          >  1:419476/1‑143 (MQ=255)
                                                                                                                                  ttCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTCAAAAGCATTGGGTACAGAAAATACCCATAGCt          >  2:683254/1‑143 (MQ=255)
                                                                                                                                         cTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGAATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATAcc   >  2:255637/1‑143 (MQ=255)
                                                                                                                                          ttCCATAACGCTGTAGCCACCAGAACAGCTATTGCGGAACGACAAAGCGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTTGGTACCGAAAATACCCCTAGCTCCATAccc  >  2:771950/1‑143 (MQ=255)
                                                                                                                                            |                                                                                                                                            
AAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCC  >  NC_000913/2289970‑2290250

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ 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.