New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5225869	48 (0.910)	4 (0.080)	4/236	NT	7.3%	coding (59/876 nt)	PP_4605	AraC family transcriptional regulator
	?	NC_002947	= 5225900	55 (1.090)					coding (90/876 nt)	PP_4605	AraC family transcriptional regulator

CGGTAGCTGTCACTCGATCCAGGGCGCAGTAGGATGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACGGCACCGGCACCTTCCGCCGCCAGCGCCCGGCCGACAAAGGTGCGCCCG  >  NC_002947/5225755‑5226036                                                                                                                                                  |                                                                                                                                         cGGTAGCTGTCACTCGATCCAGGGCGCAGTAGGATGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGActgg                                                                                                                                      >  2:35906‑M2/1‑146 (MQ=255)           cACTCGATCCACGGCGCAGTAGGATGACAGGCAAGAGGCCCTGCCCATGACGCCACTCAACCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGtt                                                                                                                            <  1:633271/150‑1 (MQ=255)             cTCGATCCAGGGCGCAGTAGGATGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCACGATGGAGCTGCGTGCACACTCTGGCTACGGACTGGCGGCGGCGTtgt                                                                                                                          >  2:866632/1‑150 (MQ=255)              tCGATCCAGGGCGCAGTAGGATGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTtgtg                                                                                                                         <  1:72322/150‑1 (MQ=255)                gATCCAGGGCGCAGTAGGATGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGa                                                                                                                       >  2:664173/1‑150 (MQ=255)                gATCCAGGGCGCAGTAGGATGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGa                                                                                                                       <  2:1360713/150‑1 (MQ=255)                          tcAGTAGGATGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGa                                                                                                             <  2:713966/149‑1 (MQ=255)                                 gATGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATgcg                                                                                                      >  1:579281/1‑150 (MQ=255)                                   tGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTtgtg                                                                                                                         >  2:500599/1‑129 (MQ=255)                                   tGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGCGCGACGGACTGGCGGCGGCGTtgtg                                                                                                                         <  1:500599/129‑1 (MQ=255)                                         gcaAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTa                                                                                              >  2:494764/1‑150 (MQ=255)                                           aaGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTAcc                                                                                            >  1:1274369/1‑150 (MQ=255)                                            agagGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCa                                                                                           >  2:539654/1‑150 (MQ=255)                                                 aCCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCTACTACCAGgcgc                                                                                      <  2:1274369/150‑1 (MQ=255)                                                 aCCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGgcgc                                                                                      >  1:1041622/1‑150 (MQ=255)                                                   ccGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTtgt                                                                                                                          <  2:967880/112‑1 (MQ=255)                                                   ccGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTtgt                                                                                                                          >  1:967880/1‑112 (MQ=255)                                                   ccGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCt                                                                                    >  1:1038966/1‑150 (MQ=255)                                                        cATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCa                                                                               >  2:107676/1‑150 (MQ=255)                                                           gACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATca                                                                            <  2:1071953/150‑1 (MQ=255)                                                                    cACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTc                                                                   <  2:978339/150‑1 (MQ=255)                                                                      cccAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGt                                                                 <  1:107676/150‑1 (MQ=255)                                                                       ccAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTAc                                                                                             <  1:270998/121‑1 (MQ=255)                                                                       ccAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTAc                                                                                             >  2:270998/1‑121 (MQ=255)                                                                       ccAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTg                                                                >  1:946358/1‑150 (MQ=255)                                                                        cAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGc                                                               <  2:579281/150‑1 (MQ=255)                                                                        cAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGc                                                               >  2:602552/1‑150 (MQ=255)                                                                              cAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATc                                                         >  1:1427005/1‑150 (MQ=255)                                                                               aaGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGTAGCTGCGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCg                                                        >  2:1292808/1‑150 (MQ=255)                                                                               aaGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTc                                                                   <  1:619772/139‑1 (MQ=255)                                                                               aaGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTc                                                                   >  2:619772/1‑139 (MQ=255)                                                                                   gtTCAACGCCATGCATGCCTCGCCCAATGCCAGGTCGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGa                                                    >  1:1046241/1‑150 (MQ=255)                                                                                       aaCGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGGCTAGCCATCACACCTTGTCGTGCTACATCGCCGAcggc                                                >  1:1026543/1‑150 (MQ=255)                                                                                        aCGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGAcggca                                               >  2:444558/1‑150 (MQ=255)                                                                                           ccATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATc                                                         <  1:493498/137‑1 (MQ=255)                                                                                           ccATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATc                                                         >  2:493498/1‑137 (MQ=255)                                                                                             atgcatgcCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCCTCACACCTTGTCGTGCTACATCGCCGAcggcaccggc                                          >  2:793693/1‑150 (MQ=255)                                                                                             atgcatgcCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCCTg                                                                     <  1:1423768/123‑1 (MQ=255)                                                                                             atgcatgcCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCCTg                                                                     >  2:1423768/1‑123 (MQ=255)                                                                                             atgcatgcCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCACCACACCTTGTCGTGCTACATCGCCGAcggcaccggc                                          >  1:553993/1‑150 (MQ=255)                                                                                              tgcatgcCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGAcggcaccggca                                         >  1:458815/1‑150 (MQ=255)                                                                                                catgcCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACggcaccggcacc                                       <  1:444558/150‑1 (MQ=255)                                                                                                            aaTGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACGGCACCGGCACCTTCCGCCGCCAg                           <  2:458815/150‑1 (MQ=255)                                                                                                                 cAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGActggcattgggcgaggcatgcatggcgtt                                                                                                             <  2:595213‑M2/63‑30 (MQ=255)                                                                                                                 cAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGActggcattgggcgaggcatgcatggcgtt                                                                                                             >  1:595213‑M2/1‑34 (MQ=255)                                                                                                                 cAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACGGCACCGGCACCTTCCGCCGCCAGCGccc                      >  2:420267/1‑150 (MQ=255)                                                                                                                  aGGCTGGAGCTGAGCGCGCACCTGGGCGACGGActggcattgggcgaggcatgcatggcgttgaacacttgcaactgggtgagtggcgtcatgggcgggtcctcttgcctgccatcctactgcgccctggatcgag                                   >  2:519283‑M2/1‑33 (MQ=255)                                                                                                                  aGGCTGGAGCTGAGCGCGCACCTGGGCGACGGActggcattgggcgaggcatgcatggcgttgaacacttgcaactgggtgagtggcgtcatgggcgggtcctcttgcctgccatcctactgcgccctggatcgag                                   <  1:519283‑M2/136‑104 (MQ=255)                                                                                                                    gCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACGGCACCGGCACCTTCCGCCGCCAGCGCCCGGc                   <  1:19592/150‑1 (MQ=255)                                                                                                                       ggAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTg                                                                     <  2:911283/97‑1 (MQ=255)                                                                                                                       ggAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTg                                                                     >  1:911283/1‑97 (MQ=255)                                                                                                                            tGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACGGCACCGGCACCTTCCGCCGCCAGCGCCCGGCCGACAAAg           <  1:494764/150‑1 (MQ=255)                                                                                                                            tGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACGGCACCGGCACCTTCCGCCGCCAGCGCCCGGCCGACAAAg           <  1:539654/150‑1 (MQ=255)                                                                                                                             gAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGAc                                                                                                            <  2:329013/52‑1 (MQ=255)                                                                                                                             gAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGAc                                                                                                            >  1:329013/1‑52 (MQ=255)                                                                                                                              aGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACGGCACCGGCACCTTCCGCCGCCAGCGCCCGGCCGACAAAGGt         >  1:869943/1‑150 (MQ=255)                                                                                                                              aGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACGGCACCGGCACCTTCCGCCGCCAGCGCCCGGCCGACAAAGGt         <  2:1041622/150‑1 (MQ=255)                                                                                                                                 gcgcACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATc                                                         >  1:1000172/1‑99 (MQ=255)                                                                                                                                 gcgcACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATc                                                         <  2:1000172/99‑1 (MQ=255)                                                                                                                                     aCCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACGGCACCGGCACCTTCCGCCGCCAGCGCCCGGCCGACAAAGGTGCGCCCg  >  1:894661/1‑150 (MQ=255)                                                                                                                                                  |                                                                                                                                         CGGTAGCTGTCACTCGATCCAGGGCGCAGTAGGATGGCAGGCAAGAGGACCCGCCCATGACGCCACTCACCCAGTTGCAAGTGTTCAACGCCATGCATGCCTCGCCCAATGCCAGGCTGGAGCTGAGCGCGCACCTGGGCGACGGACTGGCGGCGGCGTTGTGGAGCAACCGTGACGATGCGCGCGACTACCAGGCGCCTAGCCATCACACCTTGTCGTGCTACATCGCCGACGGCACCGGCACCTTCCGCCGCCAGCGCCCGGCCGACAAAGGTGCGCCCG  >  NC_002947/5225755‑5226036

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.