New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	1912459 =	41 (0.630)	3 (0.050)	3/222	NT	6.9%	intergenic (+1992/+91)	sigS/ytbE	camphor resistance protein/possible aldo/keto reductase
	?	CP000730	2319389 =	46 (0.820)					intergenic (+2042/+74)	rhbC/asp23	possible Iuc family aerobactin synthesis protein/alkaline shock protein 23

CGAATGTCAGTTCGAGGAATAAATAAAGTTAAACGAGAGCTAGGTTTTGTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGTTTTTGTTTCCACTCT  >  CP000730/2319257‑2319529                                                                                                                                     |                                                                                                                                             ggAATGTCAGTTCGAGGAATAAATAAAGTTAAACGAGAGCTAGGTTTTGTATAAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATAGCAAAACAGCTGATTTCTATCAAAtaatt                                                                                                                                      <  2:482421/140‑1 (MQ=9)  gAATGTCAGTTCGAGGAATAAATAAAGTTAAACGAGAGCTAGGTTTTGTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAAtaatta                                                                                                                                     >  1:209359/1‑141 (MQ=32)   aaTGTCAGTTCGAGGAATAAATAAAGTTAAACGAGAGCTAGGTTTTGTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAAtaattaa                                                                                                                                    >  1:718890/1‑141 (MQ=32)   aaTGTCAGTTCGAGGAATAAATAAAGTTAAACGAGAGCTAGGTTTTGTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAAtaattaa                                                                                                                                    >  2:644578/1‑141 (MQ=32)     gagaattggacctgatccaaaaaaatttgaaggctagattaaaatcgctcaactgatgaaaaggttagatgaattgtcagggcttgggacattaagttcttaggcaatgtaaaaaagctgatttctatCAAATAATTAATa                                                                                                                                  <  1:678959‑M2/13‑1 (MQ=255)                                     gagCTAGGTTTTGTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAAttt                                                                                                  >  1:339795/1‑141 (MQ=32)                                       gCTAGGTTTTGTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTaa                                                                                                >  1:777088/1‑141 (MQ=32)                                            gTTTTGTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTcc                                                                                           >  2:167115/1‑141 (MQ=32)                                                 gTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGc                                                                                      <  2:565134/141‑1 (MQ=32)                                                 gTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGc                                                                                      <  1:423977/141‑1 (MQ=32)                                                 gTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGc                                                                                      >  1:690008/1‑141 (MQ=32)                                                  tATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGcc                                                                                     <  1:207588/141‑1 (MQ=32)                                                  tATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGcc                                                                                     <  1:686463/141‑1 (MQ=32)                                                   aTTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGccc                                                                                    <  2:470612/141‑1 (MQ=32)                                                   aTTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGccc                                                                                    <  1:279085/141‑1 (MQ=32)                                                      aaTGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCttt                                                                                 >  1:64512/1‑141 (MQ=34)                                                      aaTGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCttt                                                                                 >  2:387412/1‑141 (MQ=34)                                                       aTGGCACTTAAGATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCtttt                                                                                <  1:243737/141‑1 (MQ=25)                                                           cACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATc                                                                            >  2:440489/1‑141 (MQ=38)                                                            aCTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCg                                                                           >  2:305171/1‑141 (MQ=39)                                                             cTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTCTATCGa                                                                          >  2:549280/1‑141 (MQ=37)                                                              ttAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGaa                                                                         <  1:611698/141‑1 (MQ=40)                                                                aaTATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATa                                                                       >  2:531546/1‑141 (MQ=255)                                                                   ataAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACt                                                                    <  2:463723/141‑1 (MQ=255)                                                                    taAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACtt                                                                   <  1:437205/141‑1 (MQ=255)                                                                    taAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACtt                                                                   <  1:387412/141‑1 (MQ=255)                                                                    taAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACtt                                                                   <  1:113766/141‑1 (MQ=255)                                                                             tAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAAc                                                          >  1:100400/1‑141 (MQ=255)                                                                              agcagcTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAAcc                                                         >  1:712664/1‑141 (MQ=255)                                                                                 agcTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTTTTTTTTTTTTTAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTTAACCttt                                                      >  2:67490/1‑140 (MQ=17)                                                                                 agcTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTg                                                      >  2:752750/1‑141 (MQ=255)                                                                                  gcTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGt                                                     <  1:3506/141‑1 (MQ=255)                                                                                  gcTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGt                                                     <  1:412858/141‑1 (MQ=255)                                                                                    tCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGtct                                                   >  2:317279/1‑141 (MQ=255)                                                                                    tCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGtct                                                   >  1:320449/1‑141 (MQ=255)                                                                                       aCGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGtctttc                                                <  2:380702/141‑1 (MQ=255)                                                                                       aCGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGtctttc                                                >  2:30050/1‑141 (MQ=255)                                                                                           gCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTgg                                            >  1:33084/1‑141 (MQ=255)                                                                                               tACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTAt                                        >  1:332796/1‑141 (MQ=255)                                                                                               tACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTAt                                        >  2:337652/1‑141 (MQ=255)                                                                                               attaagttcttaggcaatgtaaaaaagctgatttctatCAAAtaattaa                                                                                                                                    >  2:274448‑M2/39‑49 (MQ=255)                                                                                               attaagttcttaggcaatgtaaaaaagctgatttctatCAAAtaattaa                                                                                                                                    <  1:274448‑M2/11‑1 (MQ=255)                                                                                                 cATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTg                                      >  1:478531/1‑141 (MQ=255)                                                                                                 cATTATAAAATACATAGCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTg                                      <  1:451919/141‑1 (MQ=255)                                                                                                  aTTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGt                                     >  2:126561/1‑141 (MQ=255)                                                                                                        aaaTACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGt                               >  2:663767/1‑141 (MQ=255)                                                                                                        aaaTACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGt                               <  2:575346/141‑1 (MQ=255)                                                                                                        aaaTACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGt                               <  2:575349/141‑1 (MQ=255)                                                                                                             cATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTAttt                          >  1:12764/1‑141 (MQ=255)                                                                                                              atatCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTAtttt                         <  2:185420/141‑1 (MQ=255)                                                                                                                      aaagctgatttctatCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCgtgt                 <  1:337652‑M2/126‑1 (MQ=255)                                                                                                                       aagctgatttctatCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGtt                >  1:635298‑M2/15‑141 (MQ=255)                                                                                                                         gctgatttctatCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGtttt              >  2:281425‑M2/13‑141 (MQ=255)                                                                                                                         gctgatttctatCAAACAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTCTTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGtttt              <  2:109062‑M2/129‑1 (MQ=255)                                                                                                                             atttctatCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGTTTTTGtt          >  2:365458‑M2/9‑141 (MQ=255)                                                                                                                             atttctatCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGTTTTTGtt          <  2:306232‑M2/133‑1 (MQ=255)                                                                                                                              tttctatCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGTTTTTGttt         >  2:251895‑M2/8‑141 (MQ=255)                                                                                                                                  tatCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGTTTTTGTTTCCAc     <  2:38183‑M2/138‑1 (MQ=255)                                                                                                                                  tatCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGTTTTTGTTTCCAc     <  2:476293‑M2/138‑1 (MQ=255)                                                                                                                                  tatCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGTTTTTGTTTCCAc     <  1:165170‑M2/138‑1 (MQ=255)                                                                                                                                   atCAAATAATAAATAGAAATCAGCTTTTGTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATAGTTTTCGTTATTTTTTTCGTGTTTTTGTTTCCAct    >  2:227259‑M2/3‑141 (MQ=255)                                                                                                                                     cAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCACGCCCTTTTTATCGAATACCTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGTTTTTGTTTCCActct  <  2:661492/141‑1 (MQ=255)                                                                                                                                     |                                                                                                                                             CGAATGTCAGTTCGAGGAATAAATAAAGTTAAACGAGAGCTAGGTTTTGTATTAATGGCACTTAATATAAGGAAAATAGCAGCTCAACGAGCTGTACATTATAAAATACATATCAAAAAAGCTGATTTCTATCAAATAATTAATAGAAATCAGCTTTTTTACATTGCCTAAGAATTTAATGTCCCAAGCCCTTTTTATCGAATAACTTATTGTAAACCTTGTCTTTCTTGGTTATTGTTTTCGTTATTTTTTTCGTGTTTTTGTTTCCACTCT  >  CP000730/2319257‑2319529

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.