New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5276126 =	44 (0.900)	3 (0.060)	3/238	NT	6.5%	coding (619/1437 nt)	cioA	cyanide insensitive ubiquinol oxidase subunit I
	?	NC_002947	5276148 =	44 (0.940)					coding (597/1437 nt)	cioA	cyanide insensitive ubiquinol oxidase subunit I

GAGGGTATTGAGGCCGTGGAAATCGCCGATCACTGCCTGAATCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCGATGATCTCGTGACCTTGCGGGGTTTGCATC  >  NC_002947/5276007‑5276289                                                                                                                                              |                                                                                                                                              gAGGGTATTGAGGCCGTGGAAATCGCCGATCACTGCCTGAATCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACgaagaa                                                                                                                                       <  1:272190/150‑1 (MQ=255) gAGGGTATTGAGGCCGTGGAAATCGCCGATCACTGCACCTAACTGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACgaagaa                                                                                                                                       <  1:978136/150‑1 (MQ=255)  aGGGTATTGAGGCCGTGGAAATCGCCGATCACTGCCTGAATCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAAc                                                                                                                                      <  1:544982/150‑1 (MQ=255)       aTTGAGGCCGTGGAAATCGCCGATCACTGCCTGAATCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGt                                                                                                                                 <  1:110192/150‑1 (MQ=255)             gtcgggtggtgccggtggactggtttgcggtggtgttcaacccctccttcccctaccgcctgatgcacatggctactgccgcgttcgtgtccaccgcgttcttcgtcggtgccaggccgccgaggcaccGACGAAGAACGCGGTGGacac                                                                                                                           <  2:163787‑M2/21‑1 (MQ=255)                   gAAATCGCCGATCACTGCCTGAATCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAAcgc                                                                                                                     >  2:744874/1‑150 (MQ=255)                            gATCACTGCCTGAATCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGc                                                                                                            <  1:744874/150‑1 (MQ=255)                                 cTGCCTGAATCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCAtgt                                                                                                       >  1:83523/1‑150 (MQ=255)                                  tGCCTGAATCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCAtgtg                                                                                                      >  2:1261857/1‑150 (MQ=255)                                          tCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTg                                                                                                                                >  2:411651/1‑116 (MQ=255)                                          tCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTg                                                                                                                                <  1:411651/116‑1 (MQ=255)                                            ggggCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCgg                                                                                            <  2:957064/150‑1 (MQ=255)                                             gggCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGa                                                                                                                              <  2:817753/115‑1 (MQ=255)                                             gggCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGa                                                                                                                              >  1:817753/1‑115 (MQ=255)                                             gggCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGt                                                                                           >  1:52930/1‑150 (MQ=255)                                               gagacgaTCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAg                                                                                         >  1:1154017/3‑150 (MQ=255)                                                 gacgaTCAATGCCATCCACATGACCATCGACAGCTGGTTGCGGACGGCCGGGTTGTCACGCCCGCACATCGGGTTTCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAggg                                                                                       <  1:1186080/150‑1 (MQ=255)                                                       cAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGGAGCCATGTGCATCAGGCGGTAGGGGAagga                                                                                 >  2:1264767/1‑150 (MQ=255)                                                            ccATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGt                                                                            <  2:52930/150‑1 (MQ=255)                                                                    aTGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAAcacc                                                                    >  1:900465/1‑150 (MQ=255)                                                                       gCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGa                                                                         <  2:143319/142‑1 (MQ=255)                                                                       gCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGa                                                                         >  1:143319/1‑142 (MQ=255)                                                                             gACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAAc                                                           <  2:1154017/150‑1 (MQ=255)                                                                                  cATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGac                                                                                                                             <  2:184914/79‑1 (MQ=255)                                                                                  cATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGac                                                                                                                             >  1:184914/1‑79 (MQ=255)                                                                                    tCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCa                                                    >  2:637795/1‑150 (MQ=255)                                                                                      ttGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCAcc                                                  >  1:38307/1‑150 (MQ=255)                                                                                          gTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGca                                              >  2:870208/1‑150 (MQ=255)                                                                                          gTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGca                                              <  1:1261857/150‑1 (MQ=255)                                                                                           tACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACATGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGcac                                             >  1:755359/1‑150 (MQ=255)                                                                                            aCAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGt                                                                                                                                 >  2:557915/1‑65 (MQ=255)                                                                                            aCAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGt                                                                                                                                 <  1:557915/65‑1 (MQ=255)                                                                                                ccGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCAccc                                        >  1:597528/1‑150 (MQ=255)                                                                                                   gtgtccaccgcgttcttcgtcGGTGCCTCGGCGGCCTGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGAc                                     <  2:163787‑M1/129‑1 (MQ=255)                                                                                                    gTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCTCATACCAGTCCACCGGCACCACCCGAcc                                    >  2:162562/1‑150 (MQ=255)                                                                                                      tGTCACGCCCGCGCAGCAGGTGCCACCCCTTCTAGGCACCGACGCAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCAt                                  <  1:325964/150‑1 (MQ=255)                                                                                                       gTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATc                                 <  2:83523/150‑1 (MQ=255)                                                                                                        tCACGCCCGCGCAGCAGGTTCCAGGCCGCCGAGGCACcga                                                                                                                                              <  1:1072864/40‑1 (MQ=255)                                                                                                        tCACGCCCGCGCAGCAGGTTCCAGGCCGCCGAGGCACcga                                                                                                                                              >  2:1072864/1‑40 (MQ=255)                                                                                                              ccGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCgatgat                           >  1:491377/1‑149 (MQ=255)                                                                                                              ccGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCgatgat                           <  2:491377/149‑1 (MQ=255)                                                                                                                  gcagcaGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCGATGATCTCGt                      >  2:709188/1‑150 (MQ=255)                                                                                                                    agcagGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGc                                               >  2:86246/1‑123 (MQ=255)                                                                                                                    agcagGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGc                                               <  1:86246/123‑1 (MQ=255)                                                                                                                         gtgcctcggcggcctggcaccGACGAAGAACGCgg                                                                                                                                  <  2:1283787‑M2/14‑1 (MQ=255)                                                                                                                         gtgcctcggcggcctggcaccGACGAAGAACGCgg                                                                                                                                  >  1:1283787‑M2/22‑35 (MQ=255)                                                                                                                         GTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCGATGATCTCGTGACCTTg               <  2:503086‑M1/150‑1 (MQ=255)                                                                                                                            CCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAAc                                                           <  1:354771‑M1/103‑1 (MQ=255)                                                                                                                            CCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAAc                                                           >  2:354771‑M1/1‑103 (MQ=255)                                                                                                                              aGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACATGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCCTCGCTCATCTCGTGACCTTGCgggg          <  2:755359/150‑1 (MQ=255)                                                                                                                               ggCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCgatga                            <  1:508416/131‑1 (MQ=255)                                                                                                                               ggCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCgatga                            >  2:508416/1‑131 (MQ=255)                                                                                                                                 ccgccgAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCGATGATCTCGTGACCTTGCGGGGttt       <  1:637795/150‑1 (MQ=255)                                                                                                                                   gccgAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCGATGATCTCGTGACCTTGCGGGGTTTGc     >  2:861643/1‑150 (MQ=255)                                                                                                                                   gccgAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCGATGATCTCGTGACCTTGCGGGGTTTGc     >  2:214449/1‑150 (MQ=255)                                                                                                                                      ctggcaccGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCGATGATCTCGTGACCTTGCGGGGTTTGCATc  <  1:163787‑M2/142‑1 (MQ=255)                                                                                                                                              |                                                                                                                                              GAGGGTATTGAGGCCGTGGAAATCGCCGATCACTGCCTGAATCGGGGCGACGATCAATGCCATCCACATGGCCATCGACAGCATCTTGCGTACAGCCGGGTTGTCACGCCCGCGCAGCAGGTGCCAGGCCGCCGAGGCACCGACGAAGAACGCGGTGGACACGAACGCGGCAGTAGCCATGTGCATCAGGCGGTAGGGGAAGGAGGGGTTGAACACCACCGCAAACCAGTCCACCGGCACCACCCGACCATCGATGATCTCGTGACCTTGCGGGGTTTGCATC  >  NC_002947/5276007‑5276289

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.