New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5103413	46 (0.850)	3 (0.060)	3/242	NT	6.4%	intergenic (+27/‑362)	PP_5694/yhhS	hypothetical protein/carbohydrate efflux transporter
	?	NC_002947	= 5103441	45 (0.910)					intergenic (+55/‑334)	PP_5694/yhhS	hypothetical protein/carbohydrate efflux transporter

GAACCCAGAAGAGCCATCCGTGACCGTTCACGCCGAACCGGCAGCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTCGACGCCCTGCTGCATTCGTCCA  >  NC_002947/5103293‑5103586                                                                                                                                                     |                                                                                                                                                   gAACCCAGAAGAGCCATCCGTGACCGTTCACGCCGAACCGGCAGCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGtcatca                                                                                                                                                    >  3:295320/1‑149 (MQ=255)    cccAGAAGAGCCATCCGTGACCGTTCACGCCGAACCGGCAGCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCAcgt                                                                                                                                                 <  1:219055‑M2/149‑4 (MQ=255)                          gTTCACGCCGAACCGGCAGCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAAc                                                                                                                           <  8:163337/149‑1 (MQ=255)                          gTTCACGCCGAACCGGCAGCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAAc                                                                                                                           <  7:63450/149‑1 (MQ=255)                          gTTCACGCCGAACCGGCAGCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAAc                                                                                                                           <  1:36968/149‑1 (MQ=255)                                    aaCCGGCAGCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTaacaa                                                                                                                 >  4:286013/1‑149 (MQ=255)                                      ccGGCAGCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAAcc                                                                                                               <  7:145074/149‑1 (MQ=255)                                         gCAGCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCAc                                                                                                            <  4:275219/149‑1 (MQ=255)                                            gCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTac                                                                                                         <  4:278848/149‑1 (MQ=255)                                              tGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTacca                                                                                                       >  5:3405/1‑149 (MQ=255)                                                           gATGGTGACGATCAATACAGCGCTGACCAGGAATAAATGCGCATCCCCGACTGTGTGAAAACGGATGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTgccccgccc                                                                                           >  6:193578/1‑148 (MQ=255)                                                                tGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTcc                                                                                     >  7:98846/1‑149 (MQ=255)                                                                 gACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTcc                                                                                     >  4:233607/1‑148 (MQ=255)                                                                  aCGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCctct                                                                                       >  8:295027/1‑145 (MQ=255)                                                                  aCGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCctct                                                                                       <  7:295027/145‑1 (MQ=255)                                                                    gATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCcaca                                                                                 <  2:80349/149‑1 (MQ=255)                                                                      tCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCcacaca                                                                               >  5:167403/1‑149 (MQ=255)                                                                         aTCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGa                                                                             >  7:69298/1‑148 (MQ=255)                                                                           ccAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTgccc                                                                                                >  8:255630/1‑127 (MQ=255)                                                                           ccAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTgccc                                                                                                <  7:255630/127‑1 (MQ=255)                                                                             aGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGt                                                                       <  3:239511/149‑1 (MQ=255)                                                                                    aCCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTgc                                                                                                  <  7:89978/116‑1 (MQ=255)                                                                                    aCCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTgc                                                                                                  >  8:89978/1‑116 (MQ=255)                                                                                    aCCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGcctcc                                                                 <  3:233607/148‑1 (MQ=255)                                                                                         gAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACg                                                            >  2:3249/1‑148 (MQ=255)                                                                                           aTAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCct                                                                                         >  2:148923/1‑118 (MQ=255)                                                                                           aTAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCct                                                                                         <  1:148923/118‑1 (MQ=255)                                                                                            tAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCaaa                                                        <  2:219055/149‑1 (MQ=255)                                                                                              aCTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAaga                                                      <  3:286013/149‑1 (MQ=255)                                                                                               cTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCGCCCACACAGA‑CGCGTGCCTCCTTACGCAAagag                                                     >  5:121537/1‑149 (MQ=255)                                                                                                  cgcATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGc                                                   <  1:3249/148‑1 (MQ=255)                                                                                                         ccGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACACCCCACTACAACCTGCACCGACACTCTCCCACAACTA‑CTCGTGCCTCCAAACGCAAAGAGGAAGAAATgc                                           >  7:125109/1‑149 (MQ=255)                                                                                                         ccGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCGCCTGCCCCGCCCCGCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATgc                                           >  7:79280/1‑149 (MQ=255)                                                                                                         ccGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATgc                                           <  6:167403/149‑1 (MQ=255)                                                                                                         ccGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATgc                                           >  2:271748/1‑149 (MQ=255)                                                                                                          cGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCCCACCGTCTAAAATCAACGTTGTAACACCCCACTCCCACCTGCCCCGCCCCTGTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATgcg                                          >  5:88657/1‑149 (MQ=255)                                                                                                             cTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGGCATCAcgttttcacacagtcggggatgcgctgtgataccgggtcagcgctggattgatcgtcaccatcctgctcggcggcagctggcggttcggcgggaacggtcacggatgg                                        <  3:189405‑M2/149‑109 (MQ=255)                                                                                                              tgtgtgAAAACGGCTGACCTGCGGGCTACCCCCGTCATCAcgttttcacacagtcggggatgcgcagttattcctggtcagcgctggattgatcgtcaccatcctgctcggcggcagctgccggttcggc                                                          <  4:123108‑M2/130‑91 (MQ=255)                                                                                                              tgtgtgAAAACGGCTGACCTGCGGGCTACCCCCGTCATCAcgttttcacacagtcggggatgcgcagttattcctggtcagcgctggattgatcgtcaccatcctgctcggcggcagctgccggttcggc                                                          >  3:123108‑M2/1‑40 (MQ=255)                                                                                                                    aaaaCGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CCCGTGCCTCCTAACGCAAAGAGGCAGAAATTCGCCAGCCGCt                                 >  8:309755/1‑148 (MQ=255)                                                                                                                         ggCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAgcg                           >  5:84755/1‑149 (MQ=255)                                                                                                                            tGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTc                        <  8:98846/149‑1 (MQ=255)                                                                                                                                cTGCGGGCTACCCCCGTCATCACGTTTTCACACCATCTAAAATCAACGTTGTAACAACCCACTACCACCTGCACCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTCGACg                    >  3:61929/1‑149 (MQ=255)                                                                                                                                 tGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCCCCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATgcgc                                         >  1:232604/1‑127 (MQ=255)                                                                                                                                 tGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATgcgc                                         <  2:232604/127‑1 (MQ=255)                                                                                                                                  gCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTCGACGcc                  >  4:246876/1‑149 (MQ=255)                                                                                                                                     ggCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTcc                                                                                     <  4:135028/80‑1 (MQ=255)                                                                                                                                       cTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTCGACGCCctgct             >  4:289066/1‑149 (MQ=255)                                                                                                                                           ccccGTAAACACGTTTTAAAACCGTCAAAAATAAACTTTTAAAAAACCCCTAACCACATGCCCCGCCCCTTTCCAACAATTACCACGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTCGACGCCCTGCTGCa          <  1:271748/149‑1 (MQ=255)                                                                                                                                             ccGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTCGACGCCCTGCTGCATTc       >  2:137630/1‑149 (MQ=255)                                                                                                                                                  atcaCGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACCCAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTCGACGCCCTGCTGCATTCGTcc   <  6:84755/148‑1 (MQ=255)                                                                                                                                                  atcaCGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTGACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTCGACGCCCTGCTGCATTCGTCCa  <  6:3405/149‑1 (MQ=255)                                                                                                                                                  atcaCGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTCGACGCCCTGCTGCATTCGTCCa  >  6:259201/1‑149 (MQ=255)                                                                                                                                                  atcaCGTTTTCACACAGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCAGACCCTCTCCCACACAGA‑CTCGTGACTACTAACGCAAAGAGGAAGAAATGCGCCAGCCGCACAATAGCACGAAGCCCTGCTTCATTAGTCCa  >  4:146721/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                   GAACCCAGAAGAGCCATCCGTGACCGTTCACGCCGAACCGGCAGCTGCCGCCGAGCAGGATGGTGACGATCAATCCAGCGCTGACCAGGAATAACTGCGCATCCCCGACTGTGTGAAAACGGCTGACCTGCGGGCTACCCCCGTCATCACGTTTTCACACCGTCTAAAATCAACGTTGTAACAACCCACTACCACCTGCCCCGCCCCTCTCCCACACAGA‑CTCGTGCCTCCTAACGCAAAGAGGCAGAAATGCGCCAGCCGCTCAAGCGCTCGACGCCCTGCTGCATTCGTCCA  >  NC_002947/5103293‑5103586

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.