New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2991869 =	NA (NA)	3 (0.050)	3/228	NT	5.6%	coding (244/516 nt)	hcpC‑I	hemolysin‑coregulated protein
	?	NC_002947	2991871 =	53 (0.890)					coding (242/516 nt)	hcpC‑I	hemolysin‑coregulated protein

GAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGCTTGATTTCCTGAACCAGAATCT  >  NC_002947/2991720‑2992000                                                                                                                                                      |                                                                                                                                     gAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATa                                                                                                                                      <  1:524146/150‑1 (MQ=39) gAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATa                                                                                                                                      >  2:1200625/1‑150 (MQ=38) gAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATa                                                                                                                                      <  2:763366/150‑1 (MQ=39)  ggTGCGTGGGGTAGGACGGTATTGATGCTGACGATCGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCGTGGTTGCCTTCCCACGAGGTCCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATAc                                                                                                                                     <  1:1311836/149‑1 (MQ=11)      cgaggggAAGCAGGGTATTTATGCTGACTGTGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCa                                                                                                                                 <  2:509188/147‑1 (MQ=11)       gTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAg                                                                                                                                >  1:1274056/1‑150 (MQ=38)        tGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAgg                                                                                                                               <  2:1040506/150‑1 (MQ=38)           ggAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAggggg                                                                                                                            <  2:1196253/150‑1 (MQ=39)           ggAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAggggg                                                                                                                            <  2:529202/150‑1 (MQ=38)               gCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAg                                                                                                                        <  1:546839/150‑1 (MQ=38)                    gTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTg                                                                                                                   >  2:1270165/1‑150 (MQ=39)                     tATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGt                                                                                                                  <  2:1533102/150‑1 (MQ=39)                          aTGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGt                                                                                                             <  1:1270165/150‑1 (MQ=39)                          aTGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGt                                                                                                             <  1:858413/150‑1 (MQ=39)                              tGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAAc                                                                                                         <  1:1200625/150‑1 (MQ=38)                                  gATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGt                                                                                                             >  2:434555/1‑142 (MQ=38)                                  gATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGt                                                                                                             <  1:434555/142‑1 (MQ=39)                                      gtggCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAat                                                                                                 <  2:1224889/150‑1 (MQ=39)                                       tggCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAata                                                                                                >  1:51152/1‑150 (MQ=39)                                            tCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGGTACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGa‑aa                                                                                          <  1:1455357/150‑1 (MQ=255)                                              ttCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAgg                                                                                        <  2:1379113/150‑1 (MQ=38)                                               tCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGc                                                                                       <  2:1552097/150‑1 (MQ=38)                                                cGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCt                                                                                      <  2:313490/150‑1 (MQ=37)                                                  aGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTg                                                                                                       >  2:240336/1‑132 (MQ=40)                                                  aGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTg                                                                                                       <  1:240336/132‑1 (MQ=40)                                                             gAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTg                                                                         <  2:897624/150‑1 (MQ=39)                                                                    tGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTc                                                                  <  1:447306/150‑1 (MQ=37)                                                                    tGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTc                                                                  <  2:1274056/150‑1 (MQ=38)                                                                        ctTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGtt                                                              <  2:536340/150‑1 (MQ=38)                                                                               gCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGct                                                       >  2:225112/1‑150 (MQ=39)                                                                               gCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGct                                                       >  1:1262735/1‑150 (MQ=37)                                                                               gCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGct                                                       >  2:954422/1‑150 (MQ=39)                                                                                ccTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGctc                                                      >  2:1423372/1‑150 (MQ=38)                                                                                  ttCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGt                                                                                                     <  1:340760/102‑1 (MQ=255)                                                                                  ttCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGt                                                                                                     >  2:340760/1‑102 (MQ=255)                                                                                  ttCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGa                                                            <  2:1577491/142‑1 (MQ=37)                                                                                  ttCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGa                                                            >  1:1577491/1‑142 (MQ=39)                                                                                   tCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTgg                                                   <  2:1262735/150‑1 (MQ=38)                                                                                    ccGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTggg                                                  <  1:1050847/150‑1 (MQ=38)                                                                                     cgacgaGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTgggg                                                 <  1:225112/150‑1 (MQ=39)                                                                                     cgacgaGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTgggg                                                 <  2:51152/150‑1 (MQ=39)                                                                                      gacgaGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTggggg                                                >  2:135577/1‑150 (MQ=37)                                                                                      gacgaGGTGCGATACCAGCTGACCTCGACCGTTGCCGGCATTTCGCCGTTGCCAAGTGCCTGATACATCGGGGGGGTAGCTTTGTTCAGTGCACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTggggg                                                >  1:230416/1‑150 (MQ=11)                                                                                       acgaGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTg                                                                         <  2:528223/124‑1 (MQ=39)                                                                                       acgaGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTg                                                                         >  1:528223/1‑124 (MQ=38)                                                                                             tGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTgg                                         <  1:135577/150‑1 (MQ=34)                                                                                               cGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTCGCTTTGTTCGGCGCAGCGG‑CCTCAGGATAGGGCGTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGc                                       >  1:372125/1‑150 (MQ=11)                                                                                                    ccAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGt                                  >  1:1501709/1‑150 (MQ=35)                                                                                                              tCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGt                                                                                                     >  1:425089/1‑74 (MQ=255)                                                                                                              tCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGt                                                                                                     <  2:425089/74‑1 (MQ=255)                                                                                                              tCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAata                                                                                                <  2:322356/79‑1 (MQ=40)                                                                                                              tCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAata                                                                                                >  1:322356/1‑79 (MQ=40)                                                                                                              tCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑GAGGCTTATGc                                                                                 >  1:101617/1‑93 (MQ=37)                                                                                                              tCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGc                                                                                 <  2:101617/93‑1 (MQ=39)                                                                                                              tCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGc                        >  1:53590/1‑150 (MQ=35)                                                                                                                gACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGCtt                      >  1:150030/1‑150 (MQ=35)                                                                                                                  ccGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGCTTGa                    <  2:1116298/150‑1 (MQ=33)                                                                                                                                   ccGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGCTTGATTTCCTGAACCAGAATc   >  1:1452206/1‑150 (MQ=32)                                                                                                                                    cGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGCTTGATTTCCTGAACCAGAATCt  >  1:682589/1‑150 (MQ=32)                                                                                                                                                      |                                                                                                                                     GAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGA‑AAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGCTTGATTTCCTGAACCAGAATCT  >  NC_002947/2991720‑2992000

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.