New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 2847743	34 (0.920)	7 (0.210)	4/230	NT	18.6%	intergenic (+52/+97)	USA300HOU_2689/cbiQ	hypothetical protein/possible gluconolactonase
	?	CP000730	= 2847754	31 (0.940)					intergenic (+63/+86)	USA300HOU_2689/cbiQ	hypothetical protein/possible gluconolactonase

CTTTAACCAAGCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTTGATGACCTTTTGCAAAGCCATTA  >  CP000730/2847604‑2847882                                                                                                                                              |                                                                                                                                             cTTTAACCAAGCACTTGAAACAGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTatat                                                                                                                                             <  2:87502/141‑1 (MQ=255)   ttAACCAAGCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATatca                                                                                                                                           <  1:153867/141‑1 (MQ=255)   ttAACCAAGCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATatca                                                                                                                                           <  1:456941/141‑1 (MQ=255)    tAACCAAGCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATatcat                                                                                                                                          >  1:67535/1‑141 (MQ=255)     aaCCAAGCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATatcatc                                                                                                                                         >  2:147836/1‑141 (MQ=255)      aCCAAGCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATcc                                                                                                                                        <  2:271901/141‑1 (MQ=255)         aaGCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTa                                                                                                                                     <  2:217359/141‑1 (MQ=255)           gCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGCATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATAcctagggatga                                                                                                                                   <  2:342907‑M1/141‑12 (MQ=255)           gCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAgg                                                                                                                                   >  1:2800/1‑141 (MQ=255)           gCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAgg                                                                                                                                   >  1:393797/1‑141 (MQ=255)            cACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGt                                                                                                                                  >  1:354571‑M2/1‑140 (MQ=255)            cACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGt                                                                                                                                  >  1:170773‑M2/1‑140 (MQ=255)                 gAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGCATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGtatagt                                                                                                                             <  2:434760‑M2/141‑7 (MQ=255)                 gAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGtatagt                                                                                                                             <  2:93129‑M2/141‑7 (MQ=255)                  aaaCTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGtatagtt                                                                                                                            <  1:421480‑M2/141‑8 (MQ=255)                    aCTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCATAGGtatagttgg                                                                                                                          <  2:220673‑M2/141‑10 (MQ=255)                    aCTGGTCGCGTAGTGCTAGGCAAAGATGTTATATTCGAAGCATCAGCTGAATACGCAATCTCAGAATAATCTCATCTCACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTAGATCCCCGCGAGATGTAGTTgg                                                                                                                          <  2:337685/141‑1 (MQ=255)                                aTGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCGCGAGCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGttt                                                                                                              <  1:230274/141‑1 (MQ=255)                                     aGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAAGCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATACC‑TAGGGATGatatagttggcatttcgtatatatatt                                                                                                        >  2:184471‑M2/1‑114 (MQ=255)                                           aGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATAcctagggatga                                                                                                                                   >  2:455213‑M1/1‑98 (MQ=255)                                           aGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATAcctagggatga                                                                                                                                   <  1:375635‑M1/109‑12 (MQ=255)                                           aGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATAcctagggatga                                                                                                                                   <  1:455213‑M1/109‑12 (MQ=255)                                           aGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATAcctagggatga                                                                                                                                   >  2:375635‑M1/1‑98 (MQ=255)                                              tGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAAc                                                                                                <  2:445887/141‑1 (MQ=255)                                                ttAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCAGTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACaa                                                                                              >  1:374227/1‑141 (MQ=255)                                                  aaaTTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGc                                                                                            >  2:90905/1‑141 (MQ=255)                                                         aaGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACt                                                                                     >  1:266673/1‑141 (MQ=255)                                                                 gCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATGTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑ccc                                                                            <  1:443359/141‑1 (MQ=255)                                                                         ctcAATCTCAGAATAATCTCATTCCACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCTAACTATAtcatccctaggtatagttggcatttcgtatatatattaaaacaatgaggattgtgtaatgagattattctgag                                                                     >  1:287241‑M1/1‑68 (MQ=255)                                                                               ctcAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGcc                                                              <  1:294175/141‑1 (MQ=255)                                                                               ctcAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATACCTAGGGATGAtatagttagcatttcgtatatatattaaaacaatgaggattgtggaatgagattattctgagattgag                                                               >  1:287241‑M2/1‑73 (MQ=255)                                                                                     ataatCTCATTACACAATCCTCATTGTTTTAATATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTAAGACGCCTttc                                                          >  2:429309/1‑141 (MQ=255)                                                                                       aatCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTttcattc                                                      <  1:378935/141‑1 (MQ=255)                                                                                           tcATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCaggt                                                  <  1:145213/141‑1 (MQ=255)                                                                                            cATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCaggta                                                 <  1:315165/141‑1 (MQ=255)                                                                                             aTTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCaggtag                                                >  2:188192/1‑141 (MQ=255)                                                                                               tACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCaggtaggt                                              >  2:31292/1‑141 (MQ=255)                                                                                                acacAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATCTCCACCCTAGCTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTc                                             <  1:87461/141‑1 (MQ=255)                                                                                                            ttGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTg                                 <  1:60168/141‑1 (MQ=255)                                                                                                              gTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGaa                               <  1:249180/141‑1 (MQ=255)                                                                                                                 ttA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAAc                            <  1:107294/141‑1 (MQ=255)                                                                                                                  tA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACt                           >  1:243399/1‑141 (MQ=255)                                                                                                                   a‑‑aTATATATACGAAATGCCAACTATAtcatccctaggtatagttggcatttcgtatatatattaaaacaatgaggattgtgtaatgagcttattctgagattgagaattcagctgatgcttcgaatttaacatctttgcct                           >  2:184471‑M1/1‑26 (MQ=255)                                                                                                                         tatataCGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTtgat                      <  2:100146/141‑1 (MQ=255)                                                                                                                          atataCGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCACCCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAACCTGAAAACtttatt                      >  2:227475/1‑138 (MQ=255)                                                                                                                          atataCGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTtgatg                     >  2:227483/1‑141 (MQ=255)                                                                                                                              aCGACATGCCAACTATATCATCCCTAGGTATAGTTGGCATCTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTTGATGACCt                 <  2:402023/141‑1 (MQ=255)                                                                                                                               cGAAATGCCAACTATATAATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTTGATGACCtt                <  1:121534/141‑1 (MQ=255)                                                                                                                               cGAAATGCCAACTATAACATCCCTAGGTATAGTTGGCATTTTTTGTTTAACTCATATGTAAAAAGCACTAACATTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTATGTCTTATTAAAACTGAAAACTTTGATGACCtt                >  2:88033/1‑141 (MQ=255)                                                                                                                                      ccAACTATAcctatggatgatatagttggcatttcgtatatatattaaaacaatgaggattgtgtaatgagattattctgagattgagaattcagctgatgcttcgaatttaacatctttgcctagcattacgccaccagt          <  2:220673‑M1/141‑133 (MQ=255)                                                                                                                                      ccAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTTGATGACCTTTTGCaaa         >  1:173072/1‑141 (MQ=255)                                                                                                                                      ccAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTTGATGACCTTTTGCaaa         >  1:125947/1‑141 (MQ=255)                                                                                                                                       ccaCTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTTGATGACCTTTTGCAAAg        <  1:93129/139‑1 (MQ=255)                                                                                                                                       cAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTTGATGACCTTTTGCAAAg        <  2:423296/141‑1 (MQ=255)                                                                                                                                        aaCTATAcctagggatgatatagttggcatttcgtatatatattaaaacaatgaggattgtgtaatgagattattctgagattgagaattcagctgatgcttcgaatttaacatctttgcctagcattacgccaccagttt        <  1:421480‑M1/141‑135 (MQ=255)                                                                                                                                         aCTATAcctagggatgatatagttggcatttcgtatatatattaaaacaatgaggattgtgtaatgagattattctgagattgagaattcagctgatgcttcgaatttaacatctttgcctagcattacgccaccagtttc       <  2:93129‑M1/141‑136 (MQ=255)                                                                                                                                         aCTATAcctagggatgatatagttggcatttcgtatatatattaaaacaatgaggattgtgtaatgagattattctgagattgagaatgcagctgatgcttcgaatttaacatctttgcctagcattacgccaccagtttc       <  2:434760‑M1/141‑136 (MQ=255)                                                                                                                                         aCTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTTGATGACCTTTTGCAAAGcc      >  2:412522/1‑141 (MQ=255)                                                                                                                                           tataTCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTTGATGACCTTTTGCAAAGCCAt    >  1:362883/1‑141 (MQ=255)                                                                                                                                              acctagggatgatatagttggcatttcgtatatatattaaaacaatgaggattgtgtaatgagattattctgagattgagaattcagctgatgcttcgaatttaacatctttgcctagcattacgccaccagtttcaagtg  >  1:170773‑M1/1‑1 (MQ=255)                                                                                                                                              acctagggatgatatagttggcatttcgtatatatattaaaacaatgaggattgtgtaatgagattattctgagattgagaattcagctgatgcttcgaatttaacatctttgcctagcattacgccaccagtttcaagtg  >  1:354571‑M1/1‑1 (MQ=255)                                                                                                                                              |                                                                                                                                             CTTTAACCAAGCACTTGAAACTGGTGGCGTAATGCTAGGCAAAGATGTTAAATTCGAAGCATCAGCTGAATTCTCAATCTCAGAATAATCTCATTACACAATCCTCATTGTTTTA‑‑ATATATATACGAAATGCCAACTATATCATCCCTAGGTATAGTTGGCATTTTTCGTTTAACTCATGTGTAACAAGCACTAACTGTTCA‑CCCTAATTTTAGACGCCTTTCATTCAGGTAGGTCTTATTGAAACTGAAAACTTTGATGACCTTTTGCAAAGCCATTA  >  CP000730/2847604‑2847882

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