New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	1846959 =	71 (1.180)	5 (0.120) +TTGCGCTTGTGGATGAGGTTGCCGTTGCATGTGCCGGCCT	5/186	NT	9.2%	coding (1250/1377 nt)	pfeS‑II	histidine kinase
	?	NC_002947	2435235 =	NA (NA)					intergenic (+82/‑222)	PP_2133/PP_2134	hypothetical protein/transposase

CCGAACGTGGCGATACTGCTGTGTTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCTTTCAACACCCAAGCGCCGATAAGGAAT  >  NC_002947/2435092‑2435372                                                                                                                                                |                                                                                                                                          ccGAACGTGGCGATACTGCTGTGTTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTcgc                                                                                                                                      <  4:354744/149‑1 (MQ=255)   gAACGTGGCGATACTGCTGTGTTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCgg                                                                                                                                    <  4:303146/149‑1 (MQ=255)          gCGATACTGCTGTGTTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAAcc                                                                                                                             <  8:75464/149‑1 (MQ=255)          gCGATACTGCTGTGTTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAAcc                                                                                                                             <  2:26208/149‑1 (MQ=255)            gATACTGCTGTGTTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCg                                                                                                                           <  6:83651/149‑1 (MQ=255)            gATACTGCTGTGTTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCg                                                                                                                           <  6:363279/149‑1 (MQ=255)                 tgctgTGTTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTg                                                                                                                       >  4:14150/1‑148 (MQ=255)                   ctgTGTTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTAt                                                                                                                    >  2:236824/1‑149 (MQ=255)                     gtgtTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATgg                                                                                                                  >  7:196751/1‑149 (MQ=255)                        ttGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTa                                                                                                                <  6:108000/148‑1 (MQ=255)                        ttGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTa                                                                                                                <  8:190912/148‑1 (MQ=255)                           cAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGAc                                                                                                            >  3:13557/1‑149 (MQ=255)                            aGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGAAAACCCGCTTGTATGGTAGGACt                                                                                                           >  6:85903/1‑149 (MQ=255)                              gATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAACCCCGCTTGTATGGTAGGACtt                                                                                                          >  7:138451/1‑148 (MQ=255)                                    gCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAggg                                                                                                    <  8:196751/148‑1 (MQ=255)                                     ccTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGgga                                                                                                   <  4:13557/148‑1 (MQ=255)                                     ccTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGgga                                                                                                   <  3:363812/148‑1 (MQ=255)                                      cTACGCCCTCGAAACCTTGGCTTGAGCGCCACCCATCCGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGggagg                                                                                                 <  2:311082/149‑1 (MQ=255)                                           cccTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGgaggaggag                                                                                            <  6:151649/149‑1 (MQ=255)                                               cGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGc                                                                                         >  1:232455/1‑148 (MQ=255)                                                 aaaCCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCa                                                                                       >  4:131038/1‑148 (MQ=255)                                                      ttGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTc                                                                                 >  2:121709/1‑149 (MQ=255)                                                      ttGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTc                                                                                 >  5:262015/1‑149 (MQ=255)                                                        ggCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCg                                                                                <  1:236824/148‑1 (MQ=255)                                                           ttGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTc                                                                            >  2:24969/1‑149 (MQ=255)                                                              aGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTg                                                                          <  6:77235/148‑1 (MQ=255)                                                               gcgcCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGAc                                                                        <  8:168732/149‑1 (MQ=255)                                                                         tACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCa                                                              <  4:368046/149‑1 (MQ=255)                                                                           cgcgACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGt                                                            <  3:14150/149‑1 (MQ=255)                                                                              gACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTa                                                           >  3:306894/1‑147 (MQ=255)                                                                                    tGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCg                                                    >  1:54823/1‑148 (MQ=255)                                                                                        ggCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGga                                               <  5:374302/149‑1 (MQ=255)                                                                                         gcgcGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACt                                                                                                           <  8:351664/88‑1 (MQ=255)                                                                                         gcgcGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACt                                                                                                           >  7:351664/1‑88 (MQ=255)                                                                                            cgGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTCATGGGGTTATATAAATAGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGaaa                                           <  1:121709/149‑1 (MQ=18)                                                                                                ttCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCAc                                       <  6:262015/149‑1 (MQ=255)                                                                                                ttCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCAc                                       <  7:53350/149‑1 (MQ=255)                                                                                                 tCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAAt                                          >  5:235558/1‑145 (MQ=255)                                                                                                 tCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAAt                                          <  6:235558/145‑1 (MQ=255)                                                                                                   aTCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCAcccc                                    >  4:12842/1‑149 (MQ=255)                                                                                                   aTCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCAccc                                     <  2:232455/148‑1 (MQ=255)                                                                                                     cTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCcctc                                  >  1:141580/1‑149 (MQ=255)                                                                                                            cacTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCttt                           <  3:108343/149‑1 (MQ=255)                                                                                                             acTGGCAGAGCCGGTGCCAACCTCCGCGGTGCCTCCTTCGCTGGTAATCCCGATTGTTTGGTAGGAGTTGAAGGGAGGAGGCGTGACATAACTCGCTTCTGACTGATCGCTCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCTATc                          <  4:69509/149‑1 (MQ=17)                                                                                                             acTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCTTTc                          <  4:306894/149‑1 (MQ=255)                                                                                                                         ggTGCCAAACTCGGCGGTGCGTGCTTCGCGGGTATACGCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTAGAGACCGTAGGAGAAATCACCCCTCCTCCTTTCAAGACCCAAgcg              <  1:333698/149‑1 (MQ=14)                                                                                                                         ggTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCtt                            >  7:74553/1‑135 (MQ=255)                                                                                                                         ggTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCtt                            <  8:74553/135‑1 (MQ=255)                                                                                                                             ccAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCTTTCAACACCCAAGCGCCGa          >  6:344523/1‑149 (MQ=255)                                                                                                                              cAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCTTTCAACACCCAAGCGCCGAt         <  1:24969/149‑1 (MQ=255)                                                                                                                              cAAACTCCCCGGAGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCTTTCAACACCCAAGCGCCGAt         <  3:137625/149‑1 (MQ=255)                                                                                                                               aaaCTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTCCAGACCGTAGGAGAAATCACCCCTCCTCCTTTCAACACCCAAGCGCCGAt         >  6:218811/1‑148 (MQ=255)                                                                                                                                   tCCGCGGTGCCTGCTTCGCGGGTAAACCCACTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCTTTCAACACCCAAGCGCCGATAAgg     >  1:27006/1‑148 (MQ=255)                                                                                                                                     cgcgGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCTTTCAACACCCAAGCGCCGATAAGGAAt  <  3:131038/149‑1 (MQ=38)                                                                                                                                     cgcgGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCATCCTTTCAACACCCACGCGCCGATAAGGAAt  >  4:15540/1‑149 (MQ=255)                                                                                                                                                |                                                                                                                                          CCGAACGTGGCGATACTGCTGTGTTGCAGGATGTTGCCTACGCCCTCGAAACCTTGGCTTGAGCGCCGCCCATACGCGACCCCTGTAGGCGCGGATTCATCTGCGAACACTGGCAGAGCCGGTGCCAAACTCCGCGGTGCCTGCTTCGCGGGTAAACCCGCTTGTATGGTAGGACTTGAAGGGAGGAGGAGGGCCATAACTCGCTTCTGACTGTTCGCGCAGTACAGACCGTAGGAGAAATCACCCCTCCTCCTTTCAACACCCAAGCGCCGATAAGGAAT  >  NC_002947/2435092‑2435372

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.