New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1979271 =	3 (0.070)	24 (0.560)	23/486	0.8	88.9%	intergenic (‑56/‑482)	insA5/uspC	IS1 family protein InsA/universal stress protein C
	?	NC_000913	= 2102947	NA (NA)					pseudogene (443/446 nt)	wbbL	interrupted rhamnosyltransferase WbbL

TGGTTTCCAGCGGATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATG‑ATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCTTTAC  >  NC_000913/2102698‑2103173                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                    ggggttcccggcacaaaGGTCGCCGGCAATGTCGAGCCTTGGGGTCAAACGGGTCGATGTCTTCCGCCAGTTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTGCTGGTCTGGCGGCGCGTACTGCTG‑AATTCACTGTCGGCGAAGGGAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGATAAACATGGGCACAGACCAGCGACGTGTTCGCACCATCGTTAAt                                                                                                                                                                                                                                    <  2:237685/236‑1 (MQ=255)       ccAGCGGATAAGGTCGCCGGCCATTACCAGCCTGGTGGTAAAATGGATCGATGACTACCGCCATGTTTGGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTAACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATTACAAACAGGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTaa                                                                                                                                                                                                                              <  1:4865/251‑1 (MQ=11)            ggATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATaa                                                                                                                                                                                                                         <  1:314849/251‑1 (MQ=34)            ggATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGGTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATaa                                                                                                                                                                                                                         <  2:129064/251‑1 (MQ=21)                aaGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCCTATCAGGGACTTGTTCGCCCCTTCCTCAATCCCTAACATAAATg                                                                                                                                                                                                                      >  2:225853/1‑250 (MQ=255)                         ggCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATaaa                                                                                                                                                                                                            <  1:132045/251‑1 (MQ=40)                          gCCATTGCCAGCCTTGGGGTAAAACGGCTCGATGACTTCCAGCATGTTTTGCCATGGCAGAATCTGCGCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATTACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACTCAATaaaa                                                                                                                                                                                                           <  2:179060/251‑1 (MQ=255)                                 ccAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGaaa                                                                                                                                                                                                    <  1:182027/251‑1 (MQ=255)                                  cAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGaa                                                                                                                                                                                                     >  1:158851/1‑249 (MQ=255)                                        tGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACCTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAg                                                                                                                                                                                              <  2:146039/250‑1 (MQ=255)                                            gTAAAACGGCTCGATTACTCCCACCATGTTTTGCCATTGCAGAATCTGCTCCATTCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCATGGACTTGTTCGCACCTTCCTTAAACCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAAt                                                                                                                                                                                         <  2:274926/251‑1 (MQ=255)                                              aaaaCGGCTCGATGACTTCCACCCTGTTTTGCCATGGCAGAATCTGCTCAATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCCGAAAGCACAGGAAAttt                                                                                                                                                                                       >  2:331556/1‑251 (MQ=255)                                                       cGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACgg                                                                                                                                                                               <  2:351930/250‑1 (MQ=255)                                                           gACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTGTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGaataa                                                                                                                                                                          <  1:103985/251‑1 (MQ=255)                                                                            gCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGc                                                                                                                                                         >  1:380306/1‑251 (MQ=255)                                                                                      aaTCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCgg                                                                                                                                               >  1:169626/1‑251 (MQ=255)                                                                                      aaTCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCgg                                                                                                                                               <  2:195751/251‑1 (MQ=255)                                                                                             cccATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCGCGGAACAGGc                                                                                                                                        <  2:54865/250‑1 (MQ=255)                                                                                                     ggACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTa                                                                                                                                <  1:248640/251‑1 (MQ=255)                                                                                                           gcaaatctcgattatGGTCTGACGGCGCAGTCTGCAG‑GATTCACTGTAGGCGGAGGTAAGGTGACGACTCATGATGACAACTAGTCTCTGGTTCTCGATTTCAATCATGATCTCATATCAAGGACTTTTTCGCACATTCCTTAATCCCTAACAAAAATGACACAATAAAATCAGAAAGCACAGGAAATTCGCTTACGGAAGTATCATGTAAAGATTGCGCTTCATATCGGAACATGCATAATGTACTaaaa                                                                                                                          <  2:203306/237‑1 (MQ=255)                                                                                                                   ctTTTCTGGTCTGACTGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTaa                                                                                                                                                                  <  1:310112/203‑1 (MQ=255)                                                                                                                   ctTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGCATAATCATGTaa                                                                                                                                                                  >  2:310112/1‑203 (MQ=255)                                                                                                                     tttCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACg                                                                                                                  <  2:169626/249‑1 (MQ=255)                                                                                                                            tCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAACGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCa                                                                                                                       >  2:51761/1‑237 (MQ=255)                                                                                                                            tCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCa                                                                                                                       <  1:51761/237‑1 (MQ=255)                                                                                                                             cTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCg                                                                                                        >  1:74557/1‑251 (MQ=255)                                                                                                                               gACGGTGCTTACTG‑TGTAATTCACTGACGTCGTAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGTACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTACTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGTCATAATGTACTAAAAGCATAACGCTTACTTTCGa                                                                                                       <  2:320301/250‑1 (MQ=37)                                                                                                                                     gcTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATAttt                                                                                                <  1:196435/251‑1 (MQ=255)                                                                                                                                       ttACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACACTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAACTGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTa                                                                                               >  1:338673/1‑250 (MQ=255)                                                                                                                                        tACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTa                                                                                               <  1:331556/249‑1 (MQ=255)                                                                                                                                                      aCTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATTGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAAACAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCaaa                                                                                <  2:242557/251‑1 (MQ=255)                                                                                                                                                                                 cattgttaaCCCTGTTCTATGGCTCCAGATGACATACATGATCTCATATCAGTGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACTCAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGTTTTCGCTTCATCTCGGAACAGGCATTATGTACTAAAAGCATAACGCTTACTTTCGACATATGTAATATATGTCAGCAAATCATCATGCTTCATT‑ATGATATCggg                                                     <  2:191053/243‑1 (MQ=255)                                                                                                                                                                                                   atcgctacAGATTACAAACATGATCTCATATCAGAGACTTGGTCGCACCTTCCTTAATCCCTAACAGAAATGACACAACAAAATTAGAAAGCACAGGAAATTTTCTTACTGAAGAAGCATGTAAAGATTTCGCTTCATCTCGGAACAGGGATTATTTACTACAATCATAACGCTGACTTTTGACATATTTAATATATGTCAACAAATCATCATGCT‑CATTTATGATATCGTGATTCTATAACGAAATGt                                    <  2:287518/242‑1 (MQ=255)                                                                                                                                                                                                         ccagattaaaatcATGATCTCATATCAGGTACTTGTTCGCACCTTCCTTAATCCCTAACTTAAATGACACACTAAAATCAGAAAGCACAGAAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCAGCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACTTATTTAATATATGTCAGCAAATCATCATGCTTCATG‑ATGATATCTGGATTCAAAAACAAAATGTActcata                             >  2:374076/13‑249 (MQ=255)                                                                                                                                                                                                                           ctcATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATG‑ATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATAtttt          >  1:369663/1‑251 (MQ=255)                                                                                                                                                                                                                                   aGGGACTTGTTCGCACCTTCCTCAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTGAATATATGTCAGCAAATCATCATGCTTAATG‑ATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCTTTAc  <  1:225853/251‑1 (MQ=255)                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                    TGGTTTCCAGCGGATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTG‑AATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATG‑ATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCTTTAC  >  NC_000913/2102698‑2103173

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ 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.