New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5174387	39 (0.900)	3 (0.070)	3/240	NT	7.2%	coding (641/1689 nt)	fadD‑II	long‑chain‑fatty acid‑‑CoA ligase
	?	NC_002947	= 5174420	41 (1.000)					coding (608/1689 nt)	fadD‑II	long‑chain‑fatty acid‑‑CoA ligase

TCGGGGCCGTGCTGCGAGAAGCAGGCCAGCACTTGCAGCATGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGCGGCCGGCAGCAGGTCACCC  >  NC_002947/5174282‑5174569                                                                                                                                           |                                                                                                                                                      tCGGGGCCGTGCTGCGAGAAGCAGGCCAGCACTTGCAGCATGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTg                                                                                                                                            <  2:287359/150‑1 (MQ=255) tCGGGGCCGTGCTGCGAGAAGCAGGCCAGCACTTGCAGCATGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTg                                                                                                                                            <  1:499526/150‑1 (MQ=255)    gtgCCGTGTTGCGAGAAGCAGGCCAGCACTTGCAGCATGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGTTGCCGCCGGTTTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGc                                                                                                                                         <  1:42207/148‑1 (MQ=255)                gagaAGCAGGCCAGCACTTGCAGCATGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCgg                                                                                                                             <  1:506820/150‑1 (MQ=255)                  gaAGCAGGCCAGCACTTGCAGCATGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGcc                                                                                                                           <  2:98125/150‑1 (MQ=255)                     gCAGGCCAGCACTTGCAGCATGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTc                                                                                                                        >  2:631268/1‑150 (MQ=255)                              cACTTGCAGCATGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCAc                                                                                                               >  1:880412/1‑150 (MQ=255)                                 ttGCAGCATGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTg                                                                                                            >  1:109454/1‑150 (MQ=255)                                    cagcaTGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCtt                                                                                                         >  2:536787/1‑150 (MQ=255)                                       caTGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGaa                                                                                                      <  2:625889/150‑1 (MQ=255)                                        aTGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAAc                                                                                                     <  1:291256/150‑1 (MQ=255)                                            tGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCa                                                                                                 <  1:631268/150‑1 (MQ=255)                                                 accaGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGcc                                                                                            >  2:886632/1‑150 (MQ=255)                                                 accaGGCTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGcc                                                                                            >  2:727418/1‑150 (MQ=255)                                                      gTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACa                                                                                                                                     >  1:383141/1‑104 (MQ=255)                                                      gTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACa                                                                                                                                     <  2:383141/104‑1 (MQ=255)                                                       ttGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGc                                                                                      >  1:1064596/1‑150 (MQ=255)                                                           cATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAAcc                                                                                  >  1:101980/1‑150 (MQ=255)                                                                   aGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGcc                                                                          <  2:989226/150‑1 (MQ=255)                                                                   aGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGACATCGAGGTTCAGCGACCGCGTGTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGcc                                                                          >  1:135360/1‑150 (MQ=39)                                                                              cTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCAtctt                                                               <  1:81472/150‑1 (MQ=255)                                                                               ttGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTGTGGGCGACCGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACTGCACCGCCTGGGGCAACCGGTAGGCCGGCACCAtcttc                                                              <  1:629373/150‑1 (MQ=255)                                                                                   ccAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCa                                                          >  2:724510/1‑150 (MQ=255)                                                                                    cAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCaa                                                         <  1:727418/150‑1 (MQ=255)                                                                                    cAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCaa                                                         >  2:961281/1‑150 (MQ=255)                                                                                     aGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAAc                                                        >  2:783584/1‑150 (MQ=255)                                                                                          ggtggtGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTc                                                   <  2:880412/150‑1 (MQ=255)                                                                                             ggtgCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCAtct                                                                >  2:627631/1‑134 (MQ=255)                                                                                             ggtgCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCAtct                                                                <  1:627631/134‑1 (MQ=255)                                                                                                 ccgccgGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACg                                            <  1:783584/150‑1 (MQ=255)                                                                                                   gccgGTGTACTGCAGAACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGCCCACGgt                                          >  1:934909/1‑150 (MQ=255)                                                                                                    ccgGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGacaccggcggcaccaccggcctggccaagggcgccatgctcacccatggcaacctggtggccaacatgctgcaagtgctggcctgcttctcgcagcacggccccgatggg                                         <  1:488612‑M2/150‑111 (MQ=255)                                                                                                       gtgtACTGCAGCACCGCGATGTCATCGAGGTTCAGCGacaccggcggcaccaccggcctggccaagggcgccatgctcacccatggcaacctggtgg                                                                                           >  2:803007‑M2/1‑37 (MQ=255)                                                                                                       gtgtACTGCAGCACCGCGATGTCATCGAGGTTCAGCGacaccggcggcaccaccggcctggccaagggcgccatgctcacccatggcaacctggtgg                                                                                           <  1:803007‑M2/97‑61 (MQ=255)                                                                                                        tgtNCTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGa                                     >  2:694788/1‑150 (MQ=255)                                                                                                               cagcaCCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGAccagcca                              <  1:81747/150‑1 (MQ=255)                                                                                                                agcaCCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTggg                                                                                        <  2:1478/91‑1 (MQ=255)                                                                                                                agcaCCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTggg                                                                                        >  1:1478/1‑91 (MQ=255)                                                                                                                         aTGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTggcg                    >  1:279247/1‑150 (MQ=255)                                                                                                                          tGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCGATTACATTTTGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACCGTGTTGACCAGCCAGCCCTTggcgg                   >  1:911512/1‑150 (MQ=255)                                                                                                                             cATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGcggccg                <  2:1064596/150‑1 (MQ=255)                                                                                                                             cATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGcggccg                >  2:459994/1‑150 (MQ=255)                                                                                                                              aTCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGcggccgg               >  1:1118787/1‑150 (MQ=255)                                                                                                                              aTCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGcggccgg               >  2:521359/1‑150 (MQ=255)                                                                                                                                    gTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGCGGCCGGcagcag         <  1:459994/150‑1 (MQ=255)                                                                                                                                    gTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGCGGCCGGcagcag         <  2:101980/150‑1 (MQ=255)                                                                                                                                        aGCGACACCGGTTTGGGCGACAGCCTGTTTCCGTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGCGGCCGGCAGCAGGTCa     >  1:29697/1‑150 (MQ=255)                                                                                                                                         gCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGCGGCCGGCAGCAGGTCAc    <  1:24645/150‑1 (MQ=255)                                                                                                                                         gCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGCGGCCGGCAGCAGGTCAc    <  2:544561/150‑1 (MQ=255)                                                                                                                                         gCGACACCGGATTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGCGGCCGGCAGCAGGTCAc    >  2:220461/1‑150 (MQ=255)                                                                                                                                           gACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCGACCGGTAGGCCGGCACCATCTTCTTCCACTTGTCGACCACGGTGTTGACCAGCCCGCCCTTGGCGGCCGGCAGCAGGTCAccc  <  2:583823/150‑1 (MQ=255)                                                                                                                                           gACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGCGGCCGGCAGCAGGTCAccc  <  2:279247/150‑1 (MQ=255)                                                                                                                                           |                                                                                                                                                      TCGGGGCCGTGCTGCGAGAAGCAGGCCAGCACTTGCAGCATGTTGGCCACCAGGTTGCCATGGGTGAGCATGGCGCCCTTGGCCAGGCCGGTGGTGCCGCCGGTGTACTGCAGCACCGCGATGTCATCGAGGTTCAGCGACACCGGTTTGGGCGACAGCCCGCGGCCCTCGCGCAGCACCTGCTTGAACGGCACCGCCTGGGGCAACCGGTAGGCCGGCACCATCTTCTTCAACTTGTCGACCACGGTGTTGACCAGCCAGCCCTTGGCGGCCGGCAGCAGGTCACCC  >  NC_002947/5174282‑5174569

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.