New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4074083	NA (NA)	17 (0.240)	15/238	NT	NA	intergenic (‑577/+47)	mdtA/PP_3586	multidrug transporter membrane fusion protein/transposase
	?	NC_002947	= 4302691	NA (NA)					intergenic (+1137/‑163)	PP_3774/PP_5627	hypothetical protein/hypothetical protein

CTACGGCCTCTTTCCCGCGCATTGGGAACCATAGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATACCCCACATCATGCCAAGCATCGAGCTTGAATCCGACCTGC  >  NC_002947/4302549‑4302839                                                                                                                                               |                                                                                                                                                      cTACGGCCTCTTTCCCGCGCATTGGGAACCATAGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTg                                                                                                                                                >  1:565348/1‑150 (MQ=31) cTACGGCCTCTTTCCCGCGCATTGGGAACCATAGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTg                                                                                                                                                >  2:792964/1‑150 (MQ=31)    cGGCCTCTTTCCCGCGCATTGGGAACCATAGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGaa                                                                                                                                             <  1:842912/150‑1 (MQ=32)       ccTCTTTCCCGCGCATTGGGAACCATAGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCCACCGCGCAGCCTGGAAggg                                                                                                                                          >  2:868958/1‑150 (MQ=17)           tttCCCGCGCATTGGGAACCATAGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTgg                                                                                                                                      <  2:810110/150‑1 (MQ=32)                     aTTGGGAACCATAGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAAtctc‑tc                                                                                                                           <  2:983384/150‑1 (MQ=35)                       tGGGAACCATAGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGGATCCTGTGTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCAt                                                                                                                         <  1:868958/150‑1 (MQ=25)                        gggAACCATAGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCAtg                                                                                                                        <  1:602778/150‑1 (MQ=37)                                      aGTATGCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCAttgggattt                                                                                                          <  1:716631/150‑1 (MQ=255)                                        tATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCAttgggatttgg                                                                                                        <  2:618810/150‑1 (MQ=255)                                          ttCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCAttgggatttggga                                                                                                      <  1:792964/150‑1 (MQ=255)                                          ttCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGACTGGGTAATCTC‑TCATGTGGCAttgggatttggga                                                                                                      >  1:1150883/1‑150 (MQ=255)                                            cggcggCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATa                                                                                                    >  2:1671020/1‑150 (MQ=255)                                            cggcggCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGACTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATa                                                                                                    <  2:1150883/150‑1 (MQ=255)                                               cggcTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGa                                                                                                 <  2:1817270/150‑1 (MQ=255)                                                       cTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTAtt                                                                                         >  2:1749557/1‑150 (MQ=255)                                                        tACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCTTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTg                                                                                        >  1:1483022/1‑150 (MQ=255)                                                            cGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGc                                                                                    <  1:1671020/150‑1 (MQ=255)                                                              gATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCt                                                                                  >  2:160733/1‑150 (MQ=255)                                                                    tCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGc                                                                                    <  2:1269005/142‑1 (MQ=255)                                                                    tCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGc                                                                                    >  1:1269005/1‑142 (MQ=255)                                                                    tCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGc                                                                            <  1:191851/150‑1 (MQ=255)                                                                        cGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCa                                                                                                                          >  2:1801334/1‑100 (MQ=39)                                                                        cGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCa                                                                                                                          <  1:1801334/100‑1 (MQ=38)                                                                        cGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATa                                                                        <  2:565348/150‑1 (MQ=255)                                                                               ttttCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCAttg                                                                                                                <  1:66136/103‑1 (MQ=255)                                                                               ttttCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCAttg                                                                                                                >  2:66136/1‑103 (MQ=255)                                                                                  tCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGtct                                                              >  1:1355885/1‑150 (MQ=255)                                                                                   cTAGATCTCGATGTCAGTGCAGATCTGACGTCATAAAGATCCTGTTTGCTGTGGGACAGCGACGCCTGTAAGGGATCGGGCCACTCGTGATG‑CTCTCTGGGTTGTGGGATAGGAAGCTTATTGGAGCCTCAGGGCGCTGGCCTGCGtctc                                                             >  1:925087/1‑150 (MQ=9)                                                                                    tAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTcc                                                            <  1:46177/150‑1 (MQ=255)                                                                                      gATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTggg                                                                                                                                     <  1:1740108/76‑1 (MQ=35)                                                                                      gATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTggg                                                                                                                                     >  2:1740108/1‑76 (MQ=35)                                                                                         ctcGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAAt                                                       >  2:1887165/1‑150 (MQ=255)                                                                                                 cAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAg                                                                                                   <  2:1860832/98‑1 (MQ=255)                                                                                                 cAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAg                                                                                                   >  1:1860832/1‑98 (MQ=255)                                                                                                    tGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGa                                                                                                 <  2:1729824/97‑1 (MQ=255)                                                                                                    tGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGa                                                                                                 >  1:1729824/1‑97 (MQ=255)                                                                                                         aTCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATAccc                                       >  2:1939393/1‑150 (MQ=255)                                                                                                              aCGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAg                                                                                               <  1:30355/89‑1 (MQ=255)                                                                                                              aCGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAg                                                                                               >  2:30355/1‑89 (MQ=255)                                                                                                                gTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATACCCCAcatca                                >  1:1425674/1‑150 (MQ=255)                                                                                                                gTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATACCCCAcatca                                >  1:1856874/1‑150 (MQ=255)                                                                                                                  cATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCAtgtg                                                                                                                      <  2:790890/62‑1 (MQ=255)                                                                                                                  cATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCAtgtg                                                                                                                      >  1:790890/1‑62 (MQ=255)                                                                                                                   aTGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCAttgggatttg                                                                                                         >  2:1614571/1‑74 (MQ=255)                                                                                                                   aTGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCAttgggatttg                                                                                                         <  1:1614571/74‑1 (MQ=255)                                                                                                                   aTGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTc                                                                  <  2:1698346/113‑1 (MQ=255)                                                                                                                   aTGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTc                                                                  >  1:1698346/1‑113 (MQ=255)                                                                                                                    tGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATACCCCACATCATGcc                            <  2:1355885/150‑1 (MQ=255)                                                                                                                     gcgcATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATACCCCACATCATGCCa                           >  1:1416566/1‑150 (MQ=255)                                                                                                                      cgcATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATACCCCACATCATGCCaa                          <  2:1086590/150‑1 (MQ=255)                                                                                                                         aTCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATACCCCACATCATGCCAAGCa                       >  1:290124/1‑150 (MQ=255)                                                                                                                               tttGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATa                                                                        >  2:431806/1‑95 (MQ=255)                                                                                                                               tttGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATa                                                                        <  1:431806/95‑1 (MQ=255)                                                                                                                                ttGCTGTGCGACAGCGCAGCTTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATACCCCACATCATGCCAAGCATCGAGCt                <  2:1483022/150‑1 (MQ=255)                                                                                                                                         gACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCt                                                                                  <  2:322519/75‑1 (MQ=255)                                                                                                                                         gACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCt                                                                                  >  1:322519/1‑75 (MQ=255)                                                                                                                                              cgcAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATACCCCACATCATGCCAAGCATCGAGCTTGAATCCGACCTGc  <  1:1747965/150‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                      CTACGGCCTCTTTCCCGCGCATTGGGAACCATAGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCTGGAAGGGCTGGGTAATCTC‑TCATGTGGCATTGGGATTTGGGATAGGAAGCTTATTGGAGCCTCGGGGCGATAGCCTTCGTCTCCGAAATCAAACCGCCAATACCCCACATCATGCCAAGCATCGAGCTTGAATCCGACCTGC  >  NC_002947/4302549‑4302839

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ 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.