New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 2812450	31 (1.060)	3 (0.100)	3/478	2.7	9.0%	coding (1024/1173 nt)	emrA	multidrug efflux pump membrane fusion protein EmrA
	?	NC_000913	= 2812532	30 (1.050)					coding (1106/1173 nt)	emrA	multidrug efflux pump membrane fusion protein EmrA
Rejected: Frequency below/above cutoff threshold.

GGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCACTGGCGACATTCATGCAGGTGCTGGACTCCACCATTGCTAACGTGGCGATCCCCACTATCGCCGGGAATCTGGGCTCATCGCTCAGCCAGGGAACGTGGGT  >  NC_000913/2812297‑2812776                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                      ggtCTGGATATGGGCACAGGTAGCGCGTTCTCTCTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATAGCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAATTAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCt                                                                                                                                                                                                                                        <  1:164558/251‑1 (MQ=255)      ggATATGGGCACAGGTAGAGAGTTCTCACTGCTTCCATCGTAAAAGTCGTCCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAATCCGCTGGAACAATATCCGCTGCGTATCGGTTTGTCCTCGCTGGTTAGCGTCAATCCCACTATCCGTGACGGTCAGGTACTGGCAAAAAAAGTACGTGCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCa                                                                                                                                                                                                                                    <  2:33676/250‑1 (MQ=255)                           gTTCTCACTGCTTCCAGCGCAACATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGACCTGGACCAGCAACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGAAAATAAAGTACGTTCCCCTCCGGTAGCGGTAAGCACCACGCGTGAAATCAGCATggagctcggaagagagtcgtggaggg                                                                                                                                                                                                              >  2:54856/1‑227 (MQ=255)                           gTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTgg                                                                                                                                                                                                                                      <  1:54856/227‑1 (MQ=255)                                         cAGCGAAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACTCTGGAGAGCGACAATACCCCTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGGTCCACTCCGGTTGCGGACATCACCGCGCGTGAAATCAGCCTGGCTCCCGTCAATaaaatgctcgcagctagcgtaaaacct                                                                                                                                                                                                >  2:78768/1‑227 (MQ=255)                                                    gCGACAGGTAACTGGATCAAAGTAGTTCAGCGTCTGCCTGTGCGCATCGAACTGGACCAGACACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGAACCACGCGTGAAATCAGCCTGGCACATATCCATAATCTGATCGACGATCTCGATAAAGCTAAcgctcgct                                                                                                                                                                                      >  2:277805/1‑250 (MQ=255)                                                             aaCTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGCCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCagag                                                                                                                                                                             <  1:184438/250‑1 (MQ=255)                                                                               cAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGc                                                                                                                                                         <  1:151067/251‑1 (MQ=255)                                                                                aGCGTCTGCATGTGCGTATCGAACCGGACCAGAAACAGCTGGAGCAATATCCGCTGCGTAGCGGTTTGTCCACGCTGGGTAGCGTCAATACCACTAACCGTGACTGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACTCTGGCTAATCCAGAGTTG‑CGTGTGATGCAACAGCa                                                                                                                                                        <  2:83297/251‑1 (MQ=255)                                                                                     cTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGAACCGCGCGTGAAATCAGCCTGACACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAACAAAAAc                                                                                                                                                   >  1:288698/1‑251 (MQ=255)                                                                                     cTGCCTGTGCGTATCGAACTGAACCAGAAACAGCTGGAGCCATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGAACGTTCCACTCCGGTAGCGGTACGCACCGCGCGTGAAATCAGCCTGGAACCTGACAATAAACTGATCGACGCTATCGTAACAGCAAACGATGGCTAATCAAGAGGGG‑CGTGTGATGCacaagacaaaa                                                                                                                                                    >  2:69302/1‑240 (MQ=255)                                                                                                tATCGAACTGGACCAGAAACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCACATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGAG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGgc                                                                                                                                        >  1:127597/1‑251 (MQ=255)                                                                                                   cGAACTGGACCAGAAACAGCTGGATCAATAACCGCTGTGTATCGGTTTGACCACGCGGGTGAGCGTCAATCCCACTAACCGGGACGGACAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGgcgcg                                                                                                                                     <  2:17909/251‑1 (MQ=255)                                                                                                        tGGACCAGAAACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGACGGCGCGCAACt                                                                                                                                >  1:123925/1‑251 (MQ=255)                                                                                                                 aaCAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTAt                                                                                                                       >  1:65532/1‑251 (MQ=255)                                                                                                                           gCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTgcg                                                                                                             >  1:163328/1‑251 (MQ=255)                                                                                                                                       gCGTATCGGTTTGTCCACGCTGGTGAGCGTCAAGACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCCCTCCGGTAGCGTTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCACTGGc                                                                                                  <  1:137659/250‑1 (MQ=255)                                                                                                                                                       ccGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGGAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCACTGGCGACATTCATGCAGGTGc                                                                                 <  1:100457/250‑1 (MQ=255)                                                                                                                                                               gAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACg                                                                                                                                                                                            >  1:284555/1‑137 (MQ=255)                                                                                                                                                               gAGCGTCAATACCACGAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACg                                                                                                                                                                                            <  2:284555/137‑1 (MQ=255)                                                                                                                                                                aGCGTCAATAACACTAACCGTGGAGGTCAGGAACTGGCAAATAAAGTACATACCAATCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAG‑TGACGTGGGATGCACCAGCAAAAACCGCTGGAAGGAGCGCAAATGGTCATTATGACGATTGCGCTGTCACTGACGACATTCAAGCAGGTGCTGGACTcc                                                                         >  2:54409/1‑250 (MQ=255)                                                                                                                                                                    tCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCgcgtggacaaaccgatacgcagcggatattgctccagctgtttctggtccagttcgatacgcacaggcagacgctgaacgactttgatccagtta                                                                                                                                                        >  2:206513‑M2/1‑73 (MQ=255)                                                                                                                                                                    tCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCgcgtggacaaaccgatacgcagcggatattgctccagctgtttctggtccagttcgatacgcacaggcagacgctgaacgactttgatccagtta                                                                                                                                                        <  1:206513‑M2/168‑96 (MQ=255)                                                                                                                                                                     cAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCACTGGCGGCATTCATGCAGGTGCTGGACTCCACCAtt                                                                   >  1:323739/1‑251 (MQ=255)                                                                                                                                                                                  cGTGACGGGCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGGAGCGGTAATCTCCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTCATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTTTCACTGGCGACATTCATGCAGGTTCTGGACTCCACCATTGCTAACGTGGCGa                                                      <  2:359854/251‑1 (MQ=255)                                                                                                                                                                                    ggACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCACTGGCGACATTCATGCAGGTGCTGGACTCCACCATTGCTAACGTGGCGATc                                                    <  1:54409/250‑1 (MQ=255)                                                                                                                                                                                                gtctgcaaataagggtagtgtcacgccGGTAGAGGTAAGCACCGTGCGGGAAATCATCATGGCACCTGTCAATATACTGAGCGACGATATCTTAAAGGCTAACGCTGGATAGTCCAGATGGG‑CGTGTGATGCAACAGCACAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCAGTGGCGACAGTCATGCAGGAGCTTGACGCCACCATTGCTACGGTGGCGATTCCCACTGTCGcc                                        <  2:114884/226‑1 (MQ=255)                                                                                                                                                                                                        aTAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCACTGGCGACATTCATGCAGGTGCTGGACTCCACCATTGCTAACGTGGCGATCCCCACTATCGCCGGGAATCt                                <  1:72485/251‑1 (MQ=255)                                                                                                                                                                                                                cGTTCCACTCCGGTAGCGGTAAGCACCGCTCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCACTGGCGACATTCATGCAGGTGCTGGACTCCACCATTGCTAACGTGGCGATCCCCACTATCGCCGGGAATCTGGGCTCAt                        <  2:384075/251‑1 (MQ=255)                                                                                                                                                                                                                           ggTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCACTGGCGACATTCATGCAGGTGCTGGACTCCACCATTGCTAACGTGGCGATCCCCACTATCGCCGGGAATCTGGGCTCATCGCTCAGcc               >  1:226149/1‑249 (MQ=255)                                                                                                                                                                                                                             tAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGCTCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCCACAGCAAAAACCGCTGGAAGGCGCCCCACTGGTCATTATGACGATTGCGCTGTCACTGGCGACATTCATGCAGGCGCTGGACTCCACCATTGCTAACGTGGCGCTCCCCCCTATCGCCGGGAATCTGGGCTCGTCGCTcctaccagg           >  2:378869/1‑243 (MQ=255)                                                                                                                                                                                                                                 tgaccctctcccgcgtggacaatccgatgcgcagcggatattgctcccgctgtttctggtgcagttcgatacgcacaggcagtctctgaacgactttgatccggttaccggtcgcattgtgcgctggaagcagtgagaaagcgcgacctgtgcccatatccagaccaaccactttaccggtgtattgcacatcatcgccgtaaatatccgtggtgatagtgaccggctgaccgattcgcatattggcaat         >  2:350410‑M2/12‑12 (MQ=255)                                                                                                                                                                                                                                      gCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACGGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCACTGGCGACATTCATGCAGGTGCTGGACTCCACCATTGCTAACGTGGCGATCCCCACTATCGCCGGGAATCTGGGCTCATCGCTCAGCCAGGGAACGTGGGt  <  1:223961/251‑1 (MQ=255)                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                      GGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATCCGCTGCGTATCGGTTTGTCCACGCTGGTGAGCGTCAATACCACTAACCGTGACGGTCAGGTACTGGCAAATAAAGTACGTTCCACTCCGGTAGCGGTAAGCACCGCGCGTGAAATCAGCCTGGCACCTGTCAATAAACTGATCGACGATATCGTAAAAGCTAACGCTGGCTAATCCAGAGGTG‑CGTGTGATGCAACAGCAAAAACCGCTGGAAGGCGCGCAACTGGTCATTATGACGATTGCGCTGTCACTGGCGACATTCATGCAGGTGCTGGACTCCACCATTGCTAACGTGGCGATCCCCACTATCGCCGGGAATCTGGGCTCATCGCTCAGCCAGGGAACGTGGGT  >  NC_000913/2812297‑2812776

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 29 ≤ 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.