New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 1311782	46 (0.940)	4 (0.090)	3/232	NT	7.6%	intergenic (‑244/+34)	PP_1144/rapA	membrane protein/RNA polymerase‑associated protein RapA
	?	NC_002947	5594217 =	54 (1.190)					intergenic (‑113/+32)	PP_4921/thiC	NCS1 family transporter/phosphomethylpyrimidine synthase

ATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGCACA  >  NC_002947/1311637‑1311927                                                                                                                                                  |                                                                                                                                                  aTGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGc                                                                                                                                               >  1:530368/1‑150 (MQ=255)     cacaATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGCACCATCCACTCCGGGGGATGCCCCCGGCTTTTCCGGTGTTTGCGGGCGGGCCCGc                                                                                                                                           >  2:959501/1‑150 (MQ=255)      acaATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTTTTCGCGGGCGTGCCCGCt                                                                                                                                          >  2:209780/1‑150 (MQ=255)       caATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTc                                                                                                                                         <  2:953773/150‑1 (MQ=255)                        tGGTTATAACTCCAATCGCAGTGAGGAATAATTTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCgggg                                                                                                                        >  2:789530/1‑150 (MQ=255)                                    cAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTagcc                                                                                                            >  1:172502/1‑150 (MQ=255)                                     aaTCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTagcca                                                                                                           >  2:511853/1‑150 (MQ=255)                                     aaTCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTagcca                                                                                                           <  2:182836/150‑1 (MQ=255)                                          cAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGccac                                                                                                      >  1:569326/1‑150 (MQ=255)                                           aGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGccacc                                                                                                     <  2:1168395/150‑1 (MQ=255)                                             tGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAg                                                                                                   >  2:1114511/1‑150 (MQ=255)                                                  aaTAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGGCTGCGCTAGCCAGCCACCAGCAcgc                                                                                              >  1:1284811/1‑150 (MQ=255)                                                    tAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCcac                                                                                                                                     <  2:302419/109‑1 (MQ=255)                                                    tAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCcac                                                                                                                                     >  1:302419/1‑109 (MQ=255)                                                                ccTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAgg                                                                                >  2:221226/1‑150 (MQ=255)                                                                ccTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAgg                                                                                <  1:821664/150‑1 (MQ=255)                                                                      gCCTTCCTGTGGGAGCGGGCGAGCCGGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAgg                                                                          <  1:209780/150‑1 (MQ=255)                                                                      gCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAgg                                                                          >  1:25794/1‑150 (MQ=255)                                                                         ttCCTGTGGGAGCGGGCGAGCCCGACCACCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGggcg                                                                       >  1:359420/1‑150 (MQ=255)                                                                           ccTGTGGGAGGGGGCGAGCTCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGggcggc                                                                     <  1:959501/150‑1 (MQ=255)                                                                           ccTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGggcggc                                                                     <  1:135520/150‑1 (MQ=255)                                                                                gggagcgggcacgcccgcgaacaccggcaaagccggtggcatccaccgcagtggatgcTTCGCGGGCTCGCCCGCTCCCACAGGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTtct                                                                <  1:701489‑M1/92‑1 (MQ=255)                                                                                 ggAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTtctc                                                               <  2:98760/150‑1 (MQ=255)                                                                                       ggCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCAt                                                         >  1:353720/1‑150 (MQ=255)                                                                                        gCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCTGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCAtt                                                        <  2:359420/150‑1 (MQ=255)                                                                                          gAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGc                                                      <  1:400163/150‑1 (MQ=255)                                                                                              ccGCGAAGCAAGCACTGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCaagcccgctcccacagggtaaggtgctgcggtttagactttgtggtacagctggctgccttcctggcggaac                                                                           >  1:662931‑M1/1‑53 (MQ=255)                                                                                              ccGCGAAGCAAGCACTGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCaagcccgctcccacagggtaaggtgctgcggtttagactttgtggtacagctggctgccttcctggcggaac                                                                           <  2:662931‑M1/125‑73 (MQ=255)                                                                                              ccGCGAAGCAAGCACTGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGCGCaagcccgctcccacagggtgaggtgctgcggtttagactttgtggtacagctggctgccttcctggcggaaccgctcggcctgctcacgcatgcctt                                                  >  1:733249‑M1/1‑53 (MQ=255)                                                                                                tcgAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGcc                                                >  2:882004/2‑150 (MQ=255)                                                                                                gcgAAGCAAGCACTGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCaagcccgctcccacagggtgaggtgctgcggtttagactttgtggtacagctggctgccttcctggcggaaccgctcggcctgctcacgcatgccttgc                                                <  2:733249‑M1/150‑100 (MQ=255)                                                                                                   tggCATCCACCGCAGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATc                                             >  2:859016/3‑150 (MQ=255)                                                                                                    ggCATCCACCGCAGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCt                                            >  1:270109/2‑150 (MQ=255)                                                                                                       aTCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGcc                                                     <  2:314221/138‑1 (MQ=255)                                                                                                       aTCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGcc                                                     >  1:314221/1‑138 (MQ=255)                                                                                                       aTCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTcg                                         >  1:761240/1‑150 (MQ=255)                                                                                                        tCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTagc                                                                                                             <  1:839141/81‑1 (MQ=255)                                                                                                        tCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTagc                                                                                                             >  2:839141/1‑81 (MQ=255)                                                                                                        tCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTag                                                                                                              <  1:1080943/80‑1 (MQ=255)                                                                                                        tCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTag                                                                                                              >  2:1080943/1‑80 (MQ=255)                                                                                                        tCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGgcgc                                                                             >  2:959353/1‑113 (MQ=255)                                                                                                        tCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGgcgc                                                                             <  1:959353/113‑1 (MQ=255)                                                                                                          gcaaagccggtggcatccaccgcagtggatgcTTCGCGGGCTCGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCgcgc                                      <  1:268488‑M1/118‑1 (MQ=255)                                                                                                          caccgcagTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCgcgc                                      <  2:270109/143‑1 (MQ=255)                                                                                                                  tGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTgcg                              <  2:353720/150‑1 (MQ=255)                                                                                                                  tGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTgcg                              >  2:292433/1‑150 (MQ=255)                                                                                                                           caccgcagtggatgcTTCGCGGGCTCGCCCGCTCCCACAGGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTc                     >  2:701489‑M1/16‑150 (MQ=255)                                                                                                                            cGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCg                    >  2:362250/1‑150 (MQ=255)                                                                                                                             ggCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGa                   <  1:859016/150‑1 (MQ=255)                                                                                                                              gCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGAt                  >  1:804682/1‑150 (MQ=255)                                                                                                                                    ccGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCt            <  1:511853/150‑1 (MQ=255)                                                                                                                                    ccGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCt            <  1:813688/150‑1 (MQ=255)                                                                                                                                      ggTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGt          >  1:240245/1‑150 (MQ=255)                                                                                                                                          ttCGCGGGCaagcccgctcccacagggtaaggtgctgcggtttagactttgtggtacagctggctgccttcctggcggaaccgctcggcctgctcacgcatgccttgctcgaccgtcacatccacggcctcgatcttggcagcgtactca      >  2:898839‑M1/1‑9 (MQ=255)                                                                                                                                          ttCGCGGGCaagcccgctcccacagggtaaggtgctgcggtttagactttgtggtacagctggctgccttcctggcggaaccgctcggcctgctcacgcacgccttg                                                 >  2:113519‑M1/1‑9 (MQ=255)                                                                                                                                          ttCGCGGGCaagcccgctcccacagggtaaggtgctgcggtttagactttgtggtacagctggctgccttcctggcggaaccgctcggcctgctcacgcacgccttg                                                 <  1:113519‑M1/107‑99 (MQ=255)                                                                                                                                            cgcgGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGca    <  1:362250/150‑1 (MQ=255)                                                                                                                                              cgGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGcaca  <  2:25794/150‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                  ATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGCACA  >  NC_002947/1311637‑1311927

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