New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1979271 =	0 (0.000)	23 (0.400)	22/492	1.0	100%	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

GTTTCCAGCGGATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCTTTACATACGCCACCGC  >  NC_000913/2102700‑2103185                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                               gTTTCCAGCGGATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTGAATcc                                                                                                                                                                                                                                             <  2:161022/251‑1 (MQ=11)    tCCAGCGGATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAAAGGCTCGATGACTTCCAACATGTTATGCCATGGCAGAATCTGATCCATGCGGGACAAGAAAAACTCTTTTCTGTTCTGAAGGCGCTTACTGCTGAATTAACTGTCGGCGAAGGTAAGTTGATGAATCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAAAATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCt                                                                                                                                                                                                                                           >  2:423624/1‑250 (MQ=11)          ggATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATaa                                                                                                                                                                                                                                    <  1:318559/251‑1 (MQ=34)              aaGGTCGCAGGCCATTACCAGACTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCTCACCTTCCTTAATCCCTAACATAAATg                                                                                                                                                                                                                                 <  2:119112/250‑1 (MQ=255)                   cGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGAcaca                                                                                                                                                                                                                            <  1:435855/250‑1 (MQ=38)                                      tGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAgg                                                                                                                                                                                                        >  2:511728/1‑251 (MQ=255)                                          gTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACGTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAAt                                                                                                                                                                                                    <  2:556401/251‑1 (MQ=255)                                               aCGGCTCGATGACTTCCACCATGATTTGCCATGGCAGAATCTGCGCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGAAAAACATGATCTCATATCCGGGACTTGTTCGCAACTTCCTTAATCCCTAACATAAATGACAAAATAAAATCAGAAAGCACAGGAAAttttat                                                                                                                                                                                               >  2:320893/1‑249 (MQ=17)                                                     cGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAATAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTGAATCCCTAACAGAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACgg                                                                                                                                                                                          <  2:418893/250‑1 (MQ=255)                                                        tGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGCCACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGaat                                                                                                                                                                                       >  2:144043/1‑250 (MQ=255)                                                                      ttttGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATGCACTGTCTGCGAAGGTAAGTTGATGACTCATGATTAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCGCATATCAGGGACTTGTTCGCACCTTCCTTAATTCCTAACATAAATAACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACAGAATAATCATGTAAAGAt                                                                                                                                                                         <  2:115495/250‑1 (MQ=17)                                                                        ttGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTTACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAATCATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGAttt                                                                                                                                                                       <  1:351492/250‑1 (MQ=255)                                                                            cATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGACAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCtt                                                                                                                                                                  >  1:309403/1‑251 (MQ=255)                                                                             aTGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATTTAAAGATTTCGCTTc                                                                                                                                                                 <  1:505169/251‑1 (MQ=255)                                                                                 cAGAATCTGCTCCATGCTGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTGCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTGGCTTACTGAATAATCAGGTAAAGATTTCTCTCCAtct                                                                                                                                                             <  2:416917/251‑1 (MQ=17)                                                                                  aGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCAtctc                                                                                                                                                            >  1:145221/1‑251 (MQ=255)                                                                                  aGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCAtctc                                                                                                                                                            <  1:232673/251‑1 (MQ=255)                                                                                  aGAATCTGCTCCATGCGAGACCAGAAAATCCCTTTTCTCGTCAGCCGGCGCTTACTGCCGAATTCAATATCGTCGAACCTCACTTGATGACTCCTGCT‑AACCACTGTTCTATGGCTACAGCTGACAAACCTGATCTCATATCAGCGACTTGTTCGCACATTCATTAATCCCTAACATAAATGACACAATAAAATCAGAACGCACAGGAAATTTTCTTAAGGCATCATCCTGTAACGATTTCGCTTCAtctc                                                                                                                                                            >  2:278867/1‑251 (MQ=255)                                                                                            ccattcgtgACAATAAAAGCGCTTTTCTTGTCTGACTGCGCTTACTGCTGAAGTCACTGTCGGTGAAGGTAAGTTGATGACTCATTATGAACT‑CTGTTCTATGGCTTCAGATTACAAACATGATCTCAGATCAGGGACTGGTTCTCCCCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGATACCACAGGAAATGTTCTTACGGAATAATCATGTAAAGATTTCGCGGCATCCCGGAACAggta                                                                                                                                                  <  2:24700/243‑3 (MQ=255)                                                                                            ccATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCACGGAACAGGc                                                                                                                                                   <  2:516368/250‑1 (MQ=255)                                                                                                gCGGGACAAGAACATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAAt                                                                                                                                              >  1:100876/1‑251 (MQ=255)                                                                                                       aaGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTaa                                                                                                                                       <  1:562666/251‑1 (MQ=255)                                                                                                                        ggTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACtt                                                                                                                      <  1:48990/251‑1 (MQ=255)                                                                                                                        ggTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACtt                                                                                                                      <  2:523468/251‑1 (MQ=255)                                                                                                                                ggCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACat                                                                                                               >  1:248073/1‑250 (MQ=255)                                                                                                                                                  cACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCa                                                                                             >  2:539339/1‑250 (MQ=255)                                                                                                                                                      ggcGGCGAAGGTAAGTTGATGACTCATGATGAAAC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATAAGAAAGCTCAGGAAAGTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAatca                                                                                        <  2:155823/249‑1 (MQ=255)                                                                                                                                                          gCGAAGGGAAGTTGATTACTCATGATGATCC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATTTCAGTGACTTGGTCGCACCTTCCTTAATCCCTAACATAAATGACTCAATAAAATCAGAAATCACATGAAATTTTCTTACGGAATAATCATGTAAAGATTTTGCTTCATCTCGTAACAGGCATAATGTACTAAAAGCTGAACGCTTACTTTCGACATATTTAATATATGCCAGCAAATcatcat                                                                                    <  1:95105/251‑1 (MQ=37)                                                                                                                                                                 tAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCat                                                                             >  2:416803/1‑251 (MQ=255)                                                                                                                                                                   aGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCatg                                                                            >  2:128227/1‑250 (MQ=255)                                                                                                                                                                          gaCTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACCTATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATc                                                                    >  1:193379/1‑251 (MQ=255)                                                                                                                                                                                        c‑cTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATTATGATATCGGGATTCAAAAACa                                                      <  2:231728/251‑1 (MQ=255)                                                                                                                                                                                                        cAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGTAatcatcat                                       <  1:320893/251‑1 (MQ=255)                                                                                                                                                                                                                              atCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCtt                 <  2:145221/251‑1 (MQ=255)                                                                                                                                                                                                                                           tCGCACCTTACTTCATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTCAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTCATCTATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAACTGTAATCATCATCTGCGGGTCTATATTTTTCCTTTACATACGCCAcc    >  2:349811/1‑251 (MQ=255)                                                                                                                                                                                                                                              cACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCTTTACATACGCCACCGc  >  1:566414/1‑250 (MQ=255)                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                               GTTTCCAGCGGATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACC‑CTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCTTTACATACGCCACCGC  >  NC_000913/2102700‑2103185

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.