New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2295879 =	21 (0.710)	3 (0.110)	3/230	NT	9.0%	intergenic (+82/+51)	PP_5496/PP_2023	hypothetical protein/glutathione S‑transferase family protein
	?	NC_002947	4282196 =	41 (1.480)					coding (1078/1089 nt)	PP_3753	AraC family transcriptional regulator

CATCAATGCCTGGAACCGGTTCGGCGTCGGCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGCCCGGTCCACTTCTTGAACGCCCGGTGG  >  NC_002947/4282054‑4282332                                                                                                                                               |                                                                                                                                         caTCAATGCCTGGAACCGGTTCGGCGTCGGCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGct                                                                                                                                   >  1:467207/1‑149 (MQ=255)      aTGCCTGGAACCGGTTCGGCGTCGGCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGcc                                                                                                                              >  1:168451/1‑150 (MQ=255)      aTGCCTGGAACCGGTTCGGCGTAGGCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATGCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGcc                                                                                                                              <  2:270809/150‑1 (MQ=255)         ccTGGAACCGGTTCGGCGTCGGCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGt                                                                                                                           <  1:405820/150‑1 (MQ=255)          cTGGAACCGGTTCGGCGTCGGCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTg                                                                                                                          >  1:89783/1‑150 (MQ=255)          cTGGAACCGGTTCGGCGTCGGCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTAACCCGCGAACACCGGCAGAGCCGGTg                                                                                                                          >  2:206282/1‑150 (MQ=255)                 cGGTTCGGCGTCGGCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCTCTGCCGGTgttcgcgg                                                                                                                   <  2:467207/150‑8 (MQ=38)                         cGTCGGCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCggtg                                                                                                           >  2:236133/1‑150 (MQ=255)                             ggCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGttt                                                                                                       >  1:636193/1‑150 (MQ=255)                                tttGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTttctt                                                                                                    >  2:193762/1‑150 (MQ=255)                                tttGCCATGGTGCCGGCCAGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTTTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGAGAACACCTGCAGACCCGTTTCCATCCACCGCGGTGGTttctt                                                                                                    >  2:288184/1‑150 (MQ=38)                                          tggaggggtggctggcttcggagctgttcaaggcaatcatggtccgctgattaaacatcgggctgcacgtgggtccttgtgggagcgggcatgcccgcgaaCACCGGCAGAGCCGGTGACATCCACCGCGGTGCCCGCTTCGCGGGCATg                                                                                          <  2:37975‑M2/49‑1 (MQ=255)                                               gCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGc                                                                                                                         <  2:786856/114‑1 (MQ=255)                                               gCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGc                                                                                                                         >  1:786856/1‑114 (MQ=255)                                               gCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGc                                                                                     <  2:161662/150‑1 (MQ=255)                                                  tGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTTGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCAGGCCCGCTcc                                                                                  >  2:352205/1‑150 (MQ=255)                                                  tGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTcc                                                                                  >  1:545168/1‑150 (MQ=255)                                                       cTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCGCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGACGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAg                                                                             <  2:741333/150‑1 (MQ=255)                                                         ttCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGt                                                                           >  2:183174/1‑150 (MQ=255)                                                               tGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACa                                                                              >  1:525934/1‑141 (MQ=255)                                                               tGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACa                                                                              <  2:525934/141‑1 (MQ=255)                                                                  ccTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTAACGTGCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAg                                                                  <  1:640732/150‑1 (MQ=255)                                                                       gCTGGCCTATACGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGa                                                             <  1:798/150‑1 (MQ=255)                                                                                    atctcAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGTTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCg                                                <  1:498613/146‑1 (MQ=255)                                                                                     gggtaaacccgctcctacagggcacgcccagaattgtaggagcgggcttgcccgcgaaCACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTa                                                                          >  1:4596‑M2/59‑123 (MQ=255)                                                                                     gggtaaacccgctcctacagggcacgcccagaattgtaggagcgggcttgcccgcgaaCACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTa                                                                          <  2:4596‑M2/65‑1 (MQ=255)                                                                                         aaGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGTACGCATGCCGACCAGCCGCGCCCggagat                                           >  2:498613/1‑146 (MQ=255)                                                                                           attaaacatcgggctgcacatgggtccgtgtgggagcgggcatgcccgcgaaCACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCAt                                                                                           <  1:147755‑M2/48‑1 (MQ=255)                                                                                           attaaacatcgggctgcacatgggtccgtgtgggagcgggcatgcccgcgaaCACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCAt                                                                                           >  2:147755‑M2/53‑100 (MQ=255)                                                                                            cccgctcctacagggcacgcccagaattgtaggagcgggtttacccgcgaaCACCGGCAGAGc                                                                                                                               <  2:403158‑M2/12‑1 (MQ=255)                                                                                            cccgctcctacagggcacgcccagaattgtaggagcgggtttacccgcgaaCACCGGCAGAGc                                                                                                                               >  1:403158‑M2/52‑63 (MQ=255)                                                                                               gCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTg                                     <  2:636193/150‑1 (MQ=255)                                                                                                   ctacagggcacgcccagaattgtaggagcgggcttgcccgcgaaCACCGGCAGAGCCGGTGc                                                                                                                         >  1:376487‑M2/45‑62 (MQ=255)                                                                                                   ctacagggcacgcccagaattgtaggagcgggcttgcccgcgaaCACCGGCAGAGCCGGTGc                                                                                                                         <  2:376487‑M2/18‑1 (MQ=255)                                                                                                   cTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCAt                                                                                           >  1:173244/1‑92 (MQ=255)                                                                                                   cTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCAt                                                                                           <  2:173244/92‑1 (MQ=255)                                                                                                   cTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGct                                 >  2:756023/1‑150 (MQ=255)                                                                                                    tACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGctc                                >  2:211790/1‑150 (MQ=255)                                                                                                     aCAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGctct                               >  1:404876/1‑150 (MQ=255)                                                                                                        aTTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGcc                            <  1:183174/150‑1 (MQ=255)                                                                                                             gggCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGCCCGGTc                       <  1:193762/150‑1 (MQ=255)                                                                                                                     ccTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACTGTTAGAACGCAGGCCTACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGCCCGGTCCActtctt               <  2:89783/150‑1 (MQ=255)                                                                                                                      cTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGCCCGGTCCACTTCTTg              >  2:512543/1‑150 (MQ=255)                                                                                                                         tAGGAGCGGGTTTACCAGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCcgc                                                     >  2:675540/1‑108 (MQ=255)                                                                                                                         tAGGAGCGGGTTTACCAGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCcgc                                                     <  1:675540/108‑1 (MQ=255)                                                                                                                            gAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAg                                            >  2:629302/1‑114 (MQ=255)                                                                                                                            gAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAg                                            <  1:629302/114‑1 (MQ=255)                                                                                                                            gAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGTTCCCTGGGCTCTGCCCGGTCCACTTCTTCAACGcc        <  1:352205/150‑1 (MQ=255)                                                                                                                                 ggTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGCCCGGTCCActtc                 >  1:780143/1‑136 (MQ=255)                                                                                                                                 ggTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGCCCGGTCCActtc                 <  2:780143/136‑1 (MQ=255)                                                                                                                                  gTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGa                                                             >  2:415512/1‑91 (MQ=255)                                                                                                                                  gTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGa                                                             <  1:415512/91‑1 (MQ=255)                                                                                                                                  gTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGCCCGGTCCACTTCTTGAACGCCCGGTgg  >  1:136240/1‑150 (MQ=255)                                                                                                                                        ccgcgaaCACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGCCCGGTCCActtctt               >  1:592967‑M2/8‑131 (MQ=255)                                                                                                                                        ccgcgaaCACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGCCCGGTCCActtctt               <  2:592967‑M2/124‑1 (MQ=255)                                                                                                                                               |                                                                                                                                         CATCAATGCCTGGAACCGGTTCGGCGTCGGCTTTGCCATGGTGCCGGCCTGATCCTTTCGGGTGGCCTGTGCTGGCCTATTCGCGGGCAAGCCCGCTCCTACAATTCTGGGCGTGCCCTGTAGGAGCGGGTTTACCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGGTTTCTTCGCGGGCATGCCCGCTCCTACAGGTAGAACGCAGGCCGACCAGCCGCGCCCGGTAGCTCCCTGGGCTCTGCCCGGTCCACTTCTTGAACGCCCGGTGG  >  NC_002947/4282054‑4282332

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