New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 4715992	38 (0.950)	3 (0.080)	3/318	NT	7.7%	coding (1223/1932 nt)	PP_4173	Sensor histidine kinase/response regulator
	?	AE015451	= 4716028	36 (0.950)					coding (1259/1932 nt)	PP_4173	Sensor histidine kinase/response regulator

GTCGTTCCAGCACAGCGCCCAGCAACGCGGCCTGGGCCTGCACCTGCAACTGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGATCGCTCGTACCCTGGCCGAGCGCATGGGCGGCAAGCTACGCGGTGAAAGCCGTGAAGGCCTGGGTTCGACCTTCACCCTGGAGATGCCGTTGGCCCTTGCCAA  >  AE015451/4715816‑4716253                                                                                                                                                                                                                     |                                                                                                                                                                                                                                   gTCGTTCCAGCACAGCGCGCAGCAACGCGGCCTGGGCCTGCACCTGCAACTGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACcggcatcg                                                                                                                                                                                                            <  1:296305/236‑1 (MQ=255)                  cccAGCACCGCGGCCTGGGCCTGCACCTCCAACTGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCACCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTGcagcgtgcgtcgacttg                                                                                                                                                                                                                   >  1:174052‑M2/1‑196 (MQ=255)                   ccAGCAACGCGGCCTGGGCCTGCACCTGCAACTGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGCCCTG‑CAGCGTGCGCGACACcgg                                                                                                                                                                                                                 >  1:35202/1‑213 (MQ=255)                   ccAGCAACGCGGCCTGGGCCTGCACCTGCAACTGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTGcagcgtg                                                                                                                                                                                                                             >  2:512107‑M2/1‑195 (MQ=255)                   ccAGCAACGCGGCCTGGGCCTGCACCTGCAACTGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTGcagcgtg                                                                                                                                                                                                                             <  1:512108‑M2/202‑8 (MQ=255)                             ggcctgggcctgCACCTGCAACTGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACcg                                                                                                                                                                                                                  <  1:201178/202‑1 (MQ=255)                              gcctgggcctgCACCTGCAACTGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAatgat                                                                                                                                                                                >  1:219952/1‑235 (MQ=255)                                    gcctgCACCTGCAACTGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTg                                                                                                                                                                                        >  1:49834/1‑221 (MQ=255)                                                   tGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGGTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCAGCGACa                                                                                                                                                                                                   >  1:174768/1‑195 (MQ=255)                                                      cggccggcATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTTGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACcggcatcg                                                                                                                                                                                                            <  2:114255/183‑1 (MQ=255)                                                         ccggcATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACcggc                                                                                                                                                                                                                >  1:536731/1‑176 (MQ=255)                                                         ccggcATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACcggc                                                                                                                                                                                                                <  2:536730/176‑1 (MQ=255)                                                            gcATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTc                                                                                                                                                  >  1:397840/1‑235 (MQ=255)                                                                       cTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGc                                                                                                                                                                                                 <  2:123330/177‑1 (MQ=255)                                                                                           cACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCgggctgg                                                                                                                  <  1:701918/236‑1 (MQ=255)                                                                                            aCGCGCATCCGCCAGACCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCCCGCTGGCAGGTGCTCGCCCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGtt                                                                                                                                                                             <  1:257090/176‑1 (MQ=255)                                                                                              gcgcATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTGcagcgtgcgtcgacttgcacctggccacgttcggtgaacttcagggcgttgcctatcaggttcagcaggatctggcg                                                                                                                                                       >  2:702976‑M2/1‑120 (MQ=255)                                                                                                   tCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTc                                                                                                           <  1:220743/235‑1 (MQ=255)                                                                                                      gCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGAt                                                                                                        >  1:435193/1‑235 (MQ=255)                                                                                                               tgctgAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGACGACGCACGCTGGCAGGTGCTCGACAGGCAGGTGATCTGGCTGACCTGcagcgtgcgtcgacttgcacctggccacggtcggtgaacttcagggcgtc                                                                                                                                                                                  <  1:325021‑M2/153‑51 (MQ=255)                                                                                                                         gATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTc                                                                                                                                                  >  2:111583/1‑174 (MQ=255)                                                                                                                         gATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGATCGCTCGTACCCTGGCCGAgc                                                                                    >  1:336425/1‑236 (MQ=255)                                                                                                                                     ccTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGaa                                                                                                                                                                                     >  2:358109/1‑127 (MQ=255)                                                                                                                                       tGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACcg                                                                                                                                                                                                                  >  1:430003/1‑96 (MQ=255)                                                                                                                                       tGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACcg                                                                                                                                                                                                                  <  2:430002/96‑1 (MQ=255)                                                                                                                                            ttCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTc                                                                                                           <  2:538189/194‑1 (MQ=255)                                                                                                                                                 cGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTc                                                                                                           >  2:434119/1‑189 (MQ=255)                                                                                                                                                      gTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCCTCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGtt                                                                                                                                    >  2:155485/1‑159 (MQ=255)                                                                                                                                                           cAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGTTCGCTCGTAc                                                                                               >  2:499669/1‑191 (MQ=255)                                                                                                                                                                           cacgcTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACCGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATggcggc                                                                                                                            >  2:200987/1‑146 (MQ=255)                                                                                                                                                                           cacgcTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCgggctggggctg                                                                                                             <  2:591509/161‑1 (MQ=255)                                                                                                                                                                            acgcTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGtt                                                                                                                                                                             <  1:630305/96‑1 (MQ=255)                                                                                                                                                                            acgcTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGtt                                                                                                                                                                             >  2:630304/1‑96 (MQ=255)                                                                                                                                                                            acgcTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCCCCggg                                                                                                                      >  2:90997/1‑151 (MQ=255)                                                                                                                                                                            acgcTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCggg                                                                                                                      <  1:90997/151‑1 (MQ=255)                                                                                                                                                                                   cAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTTGGGCTGTCGCTCGCTCGTAccc                                                                                             >  1:101978/1‑169 (MQ=255)                                                                                                                                                                                               cGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGATCGCTCGTACCCTGGCCGAGCGCATGGGCGGCAAGCTACGCGGTGAAAGCCGTGAAGGCCTGGGTTCGACCTTCACCCTgg                        >  2:677330/1‑226 (MQ=255)                                                                                                                                                                                                    gTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGATCGc                                                                                                     >  2:378013/1‑144 (MQ=255)                                                                                                                                                                                                        aTCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGGCGATCGCTCGTACCCTGGCCGAGCGCATGggc                                                                            <  2:709405/165‑1 (MQ=255)                                                                                                                                                                                                           tGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGATCGCTCGTACCCTGGCCGAGCGCATGGGCGGCAAGCTACGCGGTGAAAGCCGTGAAGGCCTGGGTTCGACCTTCACCCTGGAGATGCCGTTggac          >  1:58079/1‑226 (MQ=255)                                                                                                                                                                                                           tGGCGGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCGGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGATCGCTCGTACCCTGGCCGAGCGCATGGGCGGCAAGCTACGCGGTGAAAGCCGTGAAGGCCTGGGTTCGACCTTCACCCTGGAGATGCCGTTGGCCCTTGCCaa  <  1:459334/236‑1 (MQ=255)                                                                                                                                                                                                            cgagcaCCTGCCAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGATCGCTCGTACCCTg                                                                                           >  1:733624/6‑147 (MQ=255)                                                                                                                                                                                                            cgagcaCCTGCCAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGATCGCTCGTACCCTg                                                                                           <  2:733623/142‑1 (MQ=255)                                                                                                                                                                                                               ggcccTG‑CAGCGTGCGCGACCCCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCg                                                                                                                                                 <  2:211551/86‑1 (MQ=255)                                                                                                                                                                                                                    tG‑CAGCGTGCGCGACACCGGCATCGCCCTCGACAGCGACCGCCTGGCAat                                                                                                                                                                                   >  2:60679/1‑50 (MQ=255)                                                                                                                                                                                                                     |                                                                                                                                                                                                                                   GTCGTTCCAGCACAGCGCCCAGCAACGCGGCCTGGGCCTGCACCTGCAACTGCCGGCCGGCATCGAGCAGCTGCAGGTGAACGGCGACCCCACGCGCATCCGCCAGATCCTGCTGAACCTGATAGGCAACGCCCTGAAGTTCACCGAACGTGGCCAGGTGCAAGTCGACGCACGCTGGCAGGTGCTCGACCGGCAGTTGATCTGGCTGACCTG‑CAGCGTGCGCGACACCGGCATCGGCATCGACAGCGACCGCCTGGAAATGATGTTCGTCGCCTTCCAGCAGGCCGACAGCTCGATTTCCCGTCGTTATGGCGGCACCGGGCTGGGGCTGTCGATCGCTCGTACCCTGGCCGAGCGCATGGGCGGCAAGCTACGCGGTGAAAGCCGTGAAGGCCTGGGTTCGACCTTCACCCTGGAGATGCCGTTGGCCCTTGCCAA  >  AE015451/4715816‑4716253

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ 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.