New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5802409	51 (0.990)	4 (0.080)	4/252	NT	7.5%	coding (425/1239 nt)	pilQ	type IV pili biogenesis protein
	?	NC_002947	= 5802485	49 (0.980)					coding (349/1239 nt)	pilQ	type IV pili biogenesis protein

CGGTCAGCGGGCAGATGCACCACCAACGTGTTGGTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGACAGGCCCTTGCTGCGCAGGAC  >  NC_002947/5802346‑5802626                                                                                                                                            |                                                                                                                                              cGGTCAGCGGGCAGATGCACCACCAACGTGTTGGTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACg                                                                                                                                      <  6:252818/149‑1 (MQ=255)      aGCGGGCAGATGCACCACCAACGTGTTGGTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAAt                                                                                                                                  <  8:70856/148‑1 (MQ=255)       gCGGGCAGATGCACCACCAACGTGTTGGTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATgg                                                                                                                                >  6:48206/1‑149 (MQ=255)       gCGGGCAGATGCACCACCAACGTGTTGGTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATgg                                                                                                                                <  2:133752/149‑1 (MQ=255)         gggCAGATGCACCACCAACGTGTTGGTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCt                                                                                                                              <  5:48206/149‑1 (MQ=255)                  gcgcaccaACACGTTGGTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTgcg                                                                                                                     >  6:81035/4‑149 (MQ=255)                  caccacCAACGTGTTGGTGCGCTCATCGACACTCACGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTgc                                                                                                                      <  4:119987/148‑1 (MQ=255)                          aCGTGTTGGTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAgc                                                                                                             >  1:1396/1‑149 (MQ=255)                          aCGTGTTGGTGCGCTCATCGACACTCAAGATAGCCGGAGGGATGCAGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGACAGATCGCCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAga                                                                                                             >  3:27022/1‑148 (MQ=255)                            gtgtTGGTGCGCTCATCGACACTCTTGCTAGCCGGAGGGATGTCGTAACCCTCCATGCCTGCCTGCTGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCTGCTCCCGTCGCAATTGCTGCAGGTGCGCATCCAgcgc                                                                                                           <  5:332877/149‑1 (MQ=255)                                 ggTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGa                                                                                                       <  2:297197/148‑1 (MQ=255)                                 ggTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGa                                                                                                       <  4:176185/148‑1 (MQ=255)                                  gTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGAc                                                                                                      >  7:46497/1‑148 (MQ=255)                                   tGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACt                                                                                                     >  2:312599/1‑148 (MQ=255)                                       cTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCAccc                                                                                                >  3:155243/1‑149 (MQ=255)                                        tCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCAc                                                                                                  <  2:181134/146‑1 (MQ=255)                                        tCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCAc                                                                                                  >  1:181134/1‑146 (MQ=255)                                          aTCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCggg                                                                                             <  8:46497/149‑1 (MQ=255)                                              acacTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTc                                                                                         >  5:5100/1‑149 (MQ=255)                                                  tCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTctgct                                                                                     >  5:20488/1‑149 (MQ=255)                                                    aaGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAg                                                                                                                          <  6:157759/110‑1 (MQ=255)                                                    aaGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGa                                                                                   >  2:98935/1‑149 (MQ=255)                                                      gCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGctccggctagcttgagtgtcgatgagcgcaccaacacgttggtggtgcatctgcccgctgac                                                                                 <  7:92654‑M2/149‑63 (MQ=255)                                                          ggcGGAGGGATGCCGTCAAGCTCCAGGCCTGCCAGCAGCAACTGCGACAGATCGGCGGCCTTGGGGTGGTGTATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTgcgc                                                                             <  4:27022/147‑1 (MQ=255)                                                            cGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCgg                                                                           >  6:325771/1‑149 (MQ=255)                                                             ggAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGctccggctagcttgagtgtcgatgagcgcaccaacacgttggtggtgcatctgcccgctgaccgcctgg                                                                          <  5:79142‑M2/149‑70 (MQ=255)                                                              gAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGc                                                                          >  1:55638/1‑148 (MQ=255)                                                                 ggATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAAc                                                                      <  5:325771/149‑1 (MQ=255)                                                                      ccGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCgg                                                                  <  4:114552/148‑1 (MQ=255)                                                                         tCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGACAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCAGCTGc                                                              <  2:109166/149‑1 (MQ=255)                                                                             ccTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGt                                                          <  2:1396/149‑1 (MQ=255)                                                                                 cAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGctccggctagcttgagtgtcgatgagcgcaccaacacgttggtggtgcatctgcccgctgaccgcctggccgagatgcgccagctggtg                                                      >  6:79142‑M2/1‑60 (MQ=255)                                                                                     ccTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGctccggctagcttgagtgtcgatgagcgcaccaacacgttggtggtgcatctgcccgctgaccgcctggccgagatgcgccagctggtggcgc                                                  >  8:92654‑M2/1‑56 (MQ=255)                                                                                        gCCAGCGGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAg                                               >  7:6198/1‑149 (MQ=255)                                                                                               gcaACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGcaca                                           <  1:162678/146‑1 (MQ=255)                                                                                               gcaACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGcaca                                           >  2:162678/1‑146 (MQ=255)                                                                                                       gcCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTg                                >  1:292341/1‑149 (MQ=255)                                                                                                        ccAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTgg                               >  3:59614/1‑149 (MQ=255)                                                                                                        ccAGATAGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTgg                               >  3:275790/1‑149 (MQ=255)                                                                                                         cAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGgc                              >  8:269230/1‑149 (MQ=255)                                                                                                                gcggcCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGa                       >  4:294417/1‑149 (MQ=255)                                                                                                                gcggcCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGa                       <  4:275790/149‑1 (MQ=255)                                                                                                                    ccTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGcaca                                           <  6:335640/125‑1 (MQ=255)                                                                                                                    ccTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGAGCGGCAAACTCGGCTGCAGGTGCCACCAACAGcaca                                           >  5:335640/1‑125 (MQ=255)                                                                                                                         gCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGACAGGCCCtt              >  3:194198/1‑149 (MQ=255)                                                                                                                         gCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGACAGGCCCt               <  3:294417/148‑1 (MQ=255)                                                                                                                          cGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGACAGGCCCTtg             <  5:81035/149‑1 (MQ=255)                                                                                                                           gtggtgAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTctgct                                                                                     <  2:282687/76‑1 (MQ=255)                                                                                                                               tgAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGACAGGCCCTTGCTgcg        <  8:6198/149‑1 (MQ=255)                                                                                                                                  aTGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGACAGGCCCTTGCTGCGCAg     <  4:155243/149‑1 (MQ=255)                                                                                                                                  aTGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGACAGGCCCTTGCTGCGCAg     <  6:20488/149‑1 (MQ=255)                                                                                                                                     ggCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGACAGGCCCTTGCTGCGCAGGAc  >  3:131812/1‑149 (MQ=255)                                                                                                                                      gcagcaGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCaa                                                  <  6:94114/100‑1 (MQ=255)                                                                                                                                      gcagcaGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCaa                                                  >  5:94114/1‑100 (MQ=255)                                                                                                                                            |                                                                                                                                              CGGTCAGCGGGCAGATGCACCACCAACGTGTTGGTGCGCTCATCGACACTCAAGCTAGCCGGAGGGATGCCGTCACCCTCCAGGCCTGCCAGCAGCAACTGCGCCAGATCGGCGGCCTTGGCGTGGTGAATGGGCAGCAGCTCCCGACGCAATGGCTGCAGGTGCGCATCCAGCGCCTGACTCACCCGGGCGTCTGCTGATTGCGCGGCAAACTCGGCTGCAGGTGCCACCAACAGCACATTGCCCTCCTGGCGCCGGGACAGGCCCTTGCTGCGCAGGAC  >  NC_002947/5802346‑5802626

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.