New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5608540 =	51 (0.970)	4 (0.080)	4/242	NT	8.2%	coding (1058/1272 nt)	waaA	3‑deoxy‑D‑manno‑octulosonic acid transferase
	?	NC_002947	5608576 =	41 (0.810)					coding (1022/1272 nt)	waaA	3‑deoxy‑D‑manno‑octulosonic acid transferase

CGCCCTGCCCGCCTCACCCATGCGCTGGGCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATACAGGAACAGCAGTTCGCCCATGGTGTCGCCCAG  >  NC_002947/5608392‑5608679                                                                                                                                                     |                                                                                                                                            cGCCCTGCCCGCCTCACCCATGCGCTGGGCTTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACAt                                                                                                                                             <  1:90491/149‑1 (MQ=255)        cccGCCTCACCCATGCGCTGGGCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGccc                                                                                                                                      <  7:283323/149‑1 (MQ=255)           gCCTCACCCATGCGCTGGGCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCAt                                                                                                                                   <  4:89052/149‑1 (MQ=255)           gCCTCACCCATGCGCTGGGCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCAt                                                                                                                                   <  7:150635/149‑1 (MQ=255)              tCACCCATGCGCTGGGCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAg                                                                                                                                >  8:25244/1‑149 (MQ=255)                aCCCATGCGCTGGGCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCACCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGc                                                                                                                               >  5:180025/1‑148 (MQ=255)                aCCCATGCGCTGGGCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCACCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGc                                                                                                                               <  6:180025/148‑1 (MQ=255)                  ccATGCGCTGGGCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCAcc                                                                                                                            >  3:314609/1‑149 (MQ=255)                         cTGGGCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAgg                                                                                                                     <  7:25244/149‑1 (MQ=255)                             gCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAg                                                                                                                 <  1:105248/149‑1 (MQ=255)                                        cAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCt                                                                                                      >  8:113996/1‑149 (MQ=255)                                         aGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGc                                                                                                       <  2:221627/147‑1 (MQ=255)                                         aGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGc                                                                                                       >  1:221627/1‑147 (MQ=255)                                             ccaccaGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCaa                                                                                                  <  7:113996/148‑1 (MQ=255)                                              caccaGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAACATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAAc                                                                                                 <  6:309583/148‑1 (MQ=255)                                                ccaGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGa                                                                                              >  5:93747/1‑149 (MQ=255)                                                       gcgcACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGcc                                                                                       >  7:300533/1‑149 (MQ=255)                                                         gcACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCAcc                                                                                                                            >  5:136306/1‑110 (MQ=255)                                                         gcACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCAcc                                                                                                                            <  6:136306/110‑1 (MQ=255)                                                          cACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTGGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCGAGCGCCGCAGGCTCCAACGGATTGTGCCCAc                                                                                    >  8:67611/1‑149 (MQ=255)                                                           aCCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCAcc                                                                                   <  6:93747/149‑1 (MQ=255)                                                                       aGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCTGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAg                                                                       >  4:62452/1‑149 (MQ=255)                                                                            gTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCTGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGc                                                                  <  3:62452/149‑1 (MQ=255)                                                                                 catcatCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCAcc                                                              >  8:255172/1‑148 (MQ=255)                                                                                 catcatCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCAcc                                                              >  3:46811/1‑148 (MQ=255)                                                                                     tggccgacattgccttcgtcggtggcagcctggtgccgcccggtgggcacaatccgttggagccTGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCa                                                                                                          <  7:197575‑M1/36‑1 (MQ=255)                                                                                     tggccgacattgccttcgtcggtggcagcctggtgccgaccggtgggcacaatccgttggagccTGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCa                                                                                                          >  8:197575‑M1/65‑100 (MQ=255)                                                                                     atcCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACcgacg                                                          >  8:43463/1‑148 (MQ=255)                                                                                      tcCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGaa                                                        <  6:198822/149‑1 (MQ=255)                                                                                        cACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAgg                                                      >  5:360632/1‑149 (MQ=255)                                                                                           ctgctgCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCaa                                                   <  6:360632/149‑1 (MQ=255)                                                                                              ctgcAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACAGATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAAt                                                  <  4:314609/147‑1 (MQ=255)                                                                                              ctgcAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAAt                                                  <  4:46811/147‑1 (MQ=255)                                                                                                 cAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGcgccg                                                                                                            >  7:190574/1‑86 (MQ=255)                                                                                                 cAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGcgccg                                                                                                            <  8:190574/86‑1 (MQ=255)                                                                                                 cAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCgg                                                                             >  7:5442/1‑117 (MQ=255)                                                                                                 cAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCgg                                                                             <  8:5442/117‑1 (MQ=255)                                                                                                 cAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCg                                              <  7:255172/148‑1 (MQ=255)                                                                                                   ttcgtcggtggcagcctggtgccgaccggtgggcacaatccgttggagccTGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAg                                                                                                         <  5:183058‑M1/37‑1 (MQ=255)                                                                                                   ttcgtcggtggcagcctggtgccgaccggtgggcacaatccgttggagccTGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAg                                                                                                         >  6:183058‑M1/51‑87 (MQ=255)                                                                                                      cccccGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAgg                                        >  7:296822/1‑149 (MQ=255)                                                                                                          cGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCAt                                    <  7:43463/149‑1 (MQ=255)                                                                                                           gCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATa                                   >  1:99605/1‑149 (MQ=255)                                                                                                            ccTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATa                                   >  6:176381/1‑148 (MQ=255)                                                                                                                       aTCGCGCTGATTTCGAGGAAGTTGAAAACATGCGGCCCCATGCTCACCGGCAATGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATACAGGAAcagcag                       <  6:360324/149‑1 (MQ=255)                                                                                                                        tCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATATAGGAACAGCAGt                      <  8:296822/149‑1 (MQ=255)                                                                                                                        tCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGACAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATACAGGAACAGCAGt                      >  5:141539/1‑149 (MQ=255)                                                                                                                            gcTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATACGGGAACAGCAGTTCGc                  <  8:300533/149‑1 (MQ=255)                                                                                                                             cTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCTGTCGGCACCAGGCTGc                                                                  <  8:176807/100‑1 (MQ=255)                                                                                                                             cTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGc                                                                  >  7:176807/1‑100 (MQ=255)                                                                                                                                aTTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATACAGGAACAGCAGTTCGCCCAt              <  5:176381/149‑1 (MQ=255)                                                                                                                                     gAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAg                                                       <  4:92961/103‑1 (MQ=255)                                                                                                                                       ggAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATACAGGAAcagc                         >  2:258603/1‑131 (MQ=255)                                                                                                                                       ggAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATACAGGAAcagc                         <  1:258603/131‑1 (MQ=255)                                                                                                                                               aaCACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAggg                                       >  6:240096/1‑109 (MQ=255)                                                                                                                                               aaCACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAggg                                       <  5:240096/109‑1 (MQ=255)                                                                                                                                                ccacaTGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGACAATGTCGGCCAGGGCATACAGGAAcagca                        <  4:302717/122‑1 (MQ=255)                                                                                                                                                acacATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATACAGGAACAGCAGTTCGCCCATGGTGTCGCCCAg  >  6:173347/1‑145 (MQ=255)                                                                                                                                                acacATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATACAGGAACAGCAGTTCGCCCATGGTGTCGCCCAg  <  5:173347/145‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                            CGCCCTGCCCGCCTCACCCATGCGCTGGGCGTCCTGCGGCAGTTCCACCAGGCGGCGCACCGCGCCGGCCAGCCCGTCAGCATCATCCACCTGCTGCAACGCCCCCGCCTCGCGCAGCATCGCGCTGATTTCGAGGAAGTTGAACACATGCGGCCCCATGAGCACCGGCAAGGCCAGCGCCGCAGGCTCCAACGGATTGTGCCCACCGGTCGGCACCAGGCTGCCACCGACGAAGGCAATGTCGGCCAGGGCATACAGGAACAGCAGTTCGCCCATGGTGTCGCCCAG  >  NC_002947/5608392‑5608679

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.