New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3855060 =	37 (1.560)	4 (0.180)	4/250	NT	9.9%	coding (1139/1185 nt)	emrD	multidrug efflux pump EmrD
	?	NC_000913	3855100 =	38 (1.690)					coding (1179/1185 nt)	emrD	multidrug efflux pump EmrD

TCCGGCGTGCTGGCGTCGCTCTCTGCGATGTTGCCGCAAACCGGTCAGGGCAGCCTGGGGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGAATAAAACGCCTGATAGCCCGCACAAAGCACGCTGTCTG  >  NC_000913/3854960‑3855238                                                                                                                                             |                                                                                                                                            tacGGCGTGTTGGCGTCGGCCTGCGGGATGCGGCCGCAAAGCGGTCAGGGCAGCCTGGGGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGt                                                                                                                                           <  1:252084/141‑1 (MQ=255)  ccGGCGTGCTGGCGGCGCTCGGGGTGAGGGTGCCGCGATCCGGCCGGGGCAGCCGGGGGTTGTTGAGGTCCTTAATGGGATTGTTGATCGTGCTGTGCTGGCGGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGtt                                                                                                                                          <  2:38540/143‑1 (MQ=255)     gggggCTGGGGTCCCGCTCGGCGATGTTGCCGCAAGCCGGTCAGGGCAGCCTGGGGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTaa                                                                                                                                       <  2:232401/139‑1 (MQ=255)         gCTGGGGTCGCTCTCGGCGAGGTTGCCGCAAGCCGGTCAGGGGAGCCTGGGGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCGGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAgcgc                                                                                                                                   <  2:149384/143‑1 (MQ=255)               gTCGCTCTCTGCGATGTTGCCGCAAACCGGTCAGGGCAGCCTGGGGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCa                                                                                                                             >  1:120538/1‑143 (MQ=255)               gTCGCTCTCTGCGATGTTGCCGCAAACCGGTCAGGGCAGCCTGGGGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCa                                                                                                                             <  2:129394/143‑1 (MQ=255)                        tGCGATGTTGCCGCAAACCGGTCAGGGCAGCCTGGGGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCAt                                                                                                                    >  1:406597/1‑143 (MQ=255)                                 gctgctgaCCGGTCAGGGCAGCCTGGGGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGACGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAg                                                                                                           <  2:55560/136‑1 (MQ=255)                                 gCCGCAAACCGGTCAGGGCAGCCTGGGGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGATGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCCTCATCAg                                                                                                           >  2:232158/1‑143 (MQ=255)                                         gcGGTCAGGGCAGCCTGGGGGTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATgg                                                                                                   <  1:259796/142‑1 (MQ=255)                                         cctgccggggCCGCGTGGGGTGGTTGAGTCCCTTACTGGGATTGTTGTGCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATgg                                                                                                   <  2:346341/136‑1 (MQ=255)                                         ccGGTCAGGGCAGCCTGGTGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATgg                                                                                                   <  1:88212/143‑1 (MQ=255)                                                  gccgCCTGGGGTTGTGGATGACCTTAATGGGGTGGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGGACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGAt                                                                                          <  2:45922/140‑1 (MQ=255)                                                  gCAGCCTGGGGTTGTTGATGACCTGAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCGGCATCGTCATCAGCTCCATGGGAGAACGAt                                                                                          <  2:80547/143‑1 (MQ=255)                                                     cccTGGGGTTGTTGACGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGCTGTCGCATCAGGGGCAGCCCGTTTAAGCGAACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGAtgct                                                                                       <  1:160386/142‑1 (MQ=255)                                                      ctgggggGTGGTGATCACCTTAATGGGAGTTTTGAGCGTGGTGTGCTGGCTGCCGCTGGCGCCGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCATCATCAGCTCCATGGGAGAACGAtgctg                                                                                      <  2:159878/140‑1 (MQ=255)                                                                   atgaCCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCa                                                                        >  2:31788/1‑143 (MQ=255)                                                                     gaCCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACg                                                                      >  2:129650/1‑143 (MQ=255)                                                                      aCCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGc                                                                     <  1:357478/143‑1 (MQ=255)                                                                          tAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCa                                                                 >  1:82031/1‑143 (MQ=255)                                                                          tAATGGGATTGGTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCa                                                                 <  2:432684/143‑1 (MQ=255)                                                                               ggATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGc                                                            <  2:72992/143‑1 (MQ=255)                                                                                gATTGTTGATGCTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCa                                                           <  2:19233/143‑1 (MQ=255)                                                                                 aTTGTTGATCGTGCTGTGCAGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTGACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATACTGCTTTAT‑CAGAGCAAGAATCAGCCGCat                                                          >  2:262722/1‑143 (MQ=255)                                                                                  ttgttgATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCata                                                         <  1:317584/143‑1 (MQ=255)                                                                                       gATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGCACGATGCTGCTTTAT‑CAGATCACGCCTCACCCGCATCtgcgg                                                    >  2:257956/1‑143 (MQ=255)                                                                                               tgtgctgGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATCTGCGGTGCGGAga                                            >  2:390719/1‑142 (MQ=255)                                                                                                 tgctgGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTaa                                          <  2:22193/143‑1 (MQ=255)                                                                                                  gctggctgCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGACACCGCAGCTGCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAg                                         <  1:469063/143‑1 (MQ=255)                                                                                                   ctggctgCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGa                                        <  2:180702/143‑1 (MQ=255)                                                                                                   ctggctgCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGa                                        >  1:439321/1‑143 (MQ=255)                                                                                                   ctggctgCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGGAAGa                                        >  1:311969/1‑143 (MQ=255)                                                                                                      gctgcccctgatgcgacatccgcgtcgccagcggcagccCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTaa                                          >  2:448804‑M2/40‑138 (MQ=255)                                                                                                      gctgcccctgatgcgacatccgcgtcgccagcggcagccCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTaa                                          <  1:448804‑M2/99‑1 (MQ=255)                                                                                                       ctgcccctgatgcgacatccgcgtcgccagcggcagccCGTTTAAGCGCACATCACCGCAACATCGTCATCAGCTCCATGGGAGAACGATGCTGCCTTCC‑CCGAGCACGCATCACCCGCATATGCCGCGCGCACGAAGAAtac                                    >  2:189301‑M2/39‑142 (MQ=255)                                                                                                        tggcggtGGCGGCGGGGATGTCGCATGAGGGGCAGCCCGTCTGAGCGCAGGTCACCGCAGCATCGTCATCAGCTTCATGGGAGAACGATGCGGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGAATaaa                                   <  1:285202/137‑1 (MQ=255)                                                                                                        TGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTGTAAGCGAACCATAATGATTTGTTGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGAATaaa                                   >  1:342928‑M1/1‑143 (MQ=255)                                                                                                          CCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGGACGTCACCGCAGCATCGTCAGCAGCTCCATGGGAGAACGATGCTGCCATAT‑CAGAGCCCGCCTCACCCGCCTATGCGGTGCGGAGTCAGGATCAAAc                                 <  2:98258‑M1/143‑1 (MQ=255)                                                                                                           cGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCCCGTCACCGCAGCATCGTCATCAGCTCCATCGGAGAACGATGCTCCTCCATACACA‑CACGCATCACCCGCCTATGCGACGCGGCGCGAGAACAAAACg                                >  2:433946/1‑143 (MQ=255)                                                                                                                  gACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGTGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGAATAAAACGCCTGATa                         <  1:186601/143‑1 (MQ=255)                                                                                                                     gcgGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGAATAAAACGCCTGATAGcc                      >  1:191923/1‑143 (MQ=255)                                                                                                                       ggATGTCGCATCAGCGGCCGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAGCGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGAATAAAACGCCTGATAGCCCg                    <  2:93260/143‑1 (MQ=255)                                                                                                                             cGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCAGCGTAATCAGCTCCATGGGAGAACGATGCTGCCTTAT‑CAGATCACGCATCACGCGCATAAGCGGTACGGAGTAAGAAGAAAACGCCGAATAGCCCGCACaaa              >  2:234780/1‑143 (MQ=255)                                                                                                                              gCATCAGGGGCGGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACTCGCATATGCGGTGCGGAGTAAGAATAAAACGCCTGATAGCCCGCACAAAg             <  2:317641/143‑1 (MQ=255)                                                                                                                               cgccagcggcggccCGTTTACCCGCACGCCCTCCACGCATCGTCATGAGCTCCATGGGACACCGATGCTGCTTTAG‑CAGATCACCCATCACCCGCATATGCGGTGCGGAGTAAGAATAAAACGCCTGATAGCCCGCACAAAGc            <  2:232969‑M2/129‑1 (MQ=255)                                                                                                                               cATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCGTATGCGGCGCGGAGTAAGACTACAACGCCTGCTAGCCCGCACaactc            >  2:225276/1‑140 (MQ=255)                                                                                                                                attagctgcagctCGATTAAGCGCACGCCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGAATAAAACGCCTGATAGCCCGCACAAAGCa           <  1:197921‑M2/130‑1 (MQ=255)                                                                                                                                 tCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGAATAAAACGCCTGATAGCCCGCACAAAGCAc          >  2:127453/1‑143 (MQ=255)                                                                                                                                    ggggCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGCGTAAGAATAAAACGCCTGATAGCCCGCACAAAGCACGCt       >  1:303601/1‑143 (MQ=255)                                                                                                                                         agccCGTGTCAGCGCACGGCACCGCAGCAGCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGAATAAAACGCCTGATAGCCCGCACAAAGCACGCTGTCTg  <  1:98258‑M2/139‑1 (MQ=255)                                                                                                                                             |                                                                                                                                            TCCGGCGTGCTGGCGTCGCTCTCTGCGATGTTGCCGCAAACCGGTCAGGGCAGCCTGGGGTTGTTGATGACCTTAATGGGATTGTTGATCGTGCTGTGCTGGCTGCCGCTGGCGACGCGGATGTCGCATCAGGGGCAGCCCGTTTAAGCGCACGTCACCGCAGCATCGTCATCAGCTCCATGGGAGAACGATGCTGCTTTAT‑CAGATCACGCATCACCCGCATATGCGGTGCGGAGTAAGAATAAAACGCCTGATAGCCCGCACAAAGCACGCTGTCTG  >  NC_000913/3854960‑3855238

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ 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.