New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3059857	40 (0.770)	6 (0.120)	4/250	NT	14.0%	coding (1136/1275 nt)	PP_2671	sensor histidine kinase
	?	NC_002947	= 3059911	36 (0.740)					coding (1190/1275 nt)	PP_2671	sensor histidine kinase

GGCCGAGCAGAACGCATTTGTACCGCTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCTTAACATTCCCCAGGAGGTGTGATGAA  >  NC_002947/3059716‑3060000                                                                                                                                              |                                                                                                                                                ggCCGAGCAGAACGCATTTGTACCGCTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGccc                                                                                                                                            <  6:190464/147‑1 (MQ=255) ggCCGAGCAGAACGCATTTGTACCGCTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCccac                                                                                                                                          >  4:271051/1‑149 (MQ=255)       gCAGAACGCATTTGTACCGCTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGccc                                                                                                                                    <  6:320413/149‑1 (MQ=255)              gCATTTGTACCGCTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGcc                                                                                                                             >  7:300510/1‑149 (MQ=255)                 tttGTACCGCTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAg                                                                                                                          >  4:259760/1‑149 (MQ=255)                    gTACCGCTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAggg                                                                                                                        <  5:244069/148‑1 (MQ=255)                      aCCGCTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAgggg                                                                                                                       >  2:155079/1‑147 (MQ=255)                       ccGCTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAg                                                                                                                    <  3:166586/149‑1 (MQ=255)                          cTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGG                                                                                                                                                 >  4:144100‑M1/1‑117 (MQ=255)                          cTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGG                                                                                                                                                 <  3:144100‑M1/117‑1 (MQ=255)                                 cAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGgcgcgctcggccatcgagtgcaggcctacccctgggcgc                                                                                                          >  7:55597‑M1/1‑110 (MQ=255)                                 cAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGgcgcgctcggccatcgagtgcaggcctacccctgggcgc                                                                                                          >  7:59976‑M1/1‑110 (MQ=255)                                    gaggCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGAt                                                                                                       >  2:322065/1‑149 (MQ=255)                                     aggCGTTGACCAACGGCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATg                                                                                                      <  7:293476/149‑1 (MQ=255)                                         gTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGcc                                                                                                   >  6:130727/1‑148 (MQ=255)                                         gTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCg                                                                                                  >  5:28461/1‑149 (MQ=255)                                            gACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAg                                                                                                <  5:153701/148‑1 (MQ=255)                                               cAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGccc                                                                                                                                            >  8:135198/1‑101 (MQ=255)                                               cAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGccc                                                                                                                                            <  7:135198/101‑1 (MQ=255)                                                       cccGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGgcgcgctcggccatcgagtgcaggcctacccctgggcgctggggctggtgggcgccgcagc                                                                                    <  8:59976‑M1/149‑62 (MQ=255)                                                       cccGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGgcgcgctcggccatcgagtgcaggcctacccctgggcgctggggctggtgggcgccgcagc                                                                                    <  8:55597‑M1/149‑62 (MQ=255)                                                           gCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGTCCGAGCGCGCCCGCAGCCTTg                                                                                <  4:122879/149‑1 (MQ=255)                                                            cATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTgg                                                                               <  5:130727/149‑1 (MQ=255)                                                             aTGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTggg                                                                              <  1:322065/149‑1 (MQ=255)                                                               gCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTggggg                                                                            >  1:111680/1‑149 (MQ=255)                                                                ccGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGgcgcgctcggccatcgagtgcaggcctacccctgggcgctggggctggtgggcgccgcag                                                                                     >  7:259468‑M1/1‑79 (MQ=255)                                                                ccGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGgcgcgctcggccatcgagtgcaggcctacccctgggcgctggggctggtgggcgccgcag                                                                                     <  8:259468‑M1/139‑61 (MQ=255)                                                                ccGGTGCCAGCCAGGGGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGTCGCCCACCAGCCCCAGCGCCCAGGGGTAGTCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTgggggg                                                                           <  6:71351/149‑1 (MQ=255)                                                                  ggTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGa                                                                         <  8:300510/149‑1 (MQ=255)                                                                      ccagccagGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGa                                                                         <  2:91165/145‑1 (MQ=255)                                                                      ccagccagGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGa                                                                         >  1:91165/1‑145 (MQ=255)                                                                      ccagccagGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTa                                                                     <  3:39751/149‑1 (MQ=255)                                                                        agccagGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACg                                                                   >  5:31283/1‑149 (MQ=255)                                                                        agccagGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACg                                                                   >  2:136080/1‑149 (MQ=255)                                                                        agccagGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACg                                                                   >  1:119256/1‑149 (MQ=255)                                                                        agccagGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACg                                                                   >  7:214305/1‑149 (MQ=255)                                                                         gccagGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGc                                                                  <  5:50013/149‑1 (MQ=255)                                                                                 cgggtgcgCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCa                                                           <  3:271051/148‑1 (MQ=255)                                                                                    gtgcgCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAgccg                                                       >  1:118509/1‑149 (MQ=255)                                                                                     tgcgCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAgccgc                                                      <  1:155079/149‑1 (MQ=255)                                                                                                 gcAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAggcggc                                          <  8:214305/149‑1 (MQ=255)                                                                                                    gTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTgg                                       <  2:118509/149‑1 (MQ=255)                                                                                                               ttGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCt                            >  6:149528/1‑149 (MQ=255)                                                                                                                tGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCt                            >  2:238142/1‑148 (MQ=255)                                                                                                                   gcCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCTTaa                         >  6:90084/1‑148 (MQ=255)                                                                                                                     cTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCTTAACAt                      >  2:277442/1‑149 (MQ=255)                                                                                                                        ttCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCTTAACATTc                    <  6:31283/148‑1 (MQ=255)                                                                                                                                 gACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCTTAACATTCCCCAGGAGgt          <  1:238142/149‑1 (MQ=255)                                                                                                                                     aTGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCTTAACATTCCCCAGGAGGTGtga      <  1:277442/149‑1 (MQ=255)                                                                                                                                      tGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCTTAACATTCCCCAGGAGGTGtgat     <  3:259760/149‑1 (MQ=255)                                                                                                                                        gCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCccgcagccattgtcgcgaatgaacaggcgcaagcccttgggactgcgctgcaggcgcacccgcacctggctggcaccggcatgccggg   <  8:55597‑M2/149‑89 (MQ=255)                                                                                                                                        gCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCccgcagccattgtcgcgaatgaacaggcgcaagcccttgggactgcgctgcaggcgcacccgcacctggctggcaccggcatgccggg   <  8:59976‑M2/149‑89 (MQ=255)                                                                                                                                         cTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCccgcagccattgtcgcgaatgaacaggcgcaagcccttgggactgcgctgcaggcgcacccgcacctggctggcaccgg            >  7:259468‑M2/1‑60 (MQ=255)                                                                                                                                         cTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCccgcagccattgtcgcgaatgaacaggcgcaagcccttgggactgcgctgcaggcgcacccgcacctggctggcaccgg            <  8:259468‑M2/139‑80 (MQ=255)                                                                                                                                         cTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCTTAACATTCCCCAGGAGGTGTGATGaa  >  8:198542/1‑149 (MQ=255)                                                                                                                                              |                                                                                                                                                GGCCGAGCAGAACGCATTTGTACCGCTTGCTGCAGGAGGCGTTGACCAACGTCGCCCGGCATGCCGGTGCCAGCCAGGTGCGGGTGCGCCTGCAGCGCAGTCCCAAGGGCTTGCGCCTGTTCATTCGCGACAATGGCTGCGGCGCCCACCAGCCCCAGCGCCCAGGGGTAGGCCTGCACTCGATGGCCGAGCGCGCCCGCAGCCTTGGGGGGGAGTTACGCATTTTCAGCCGCCCTGGAGGCGGCTGGGCGCTGGCCCTTAACATTCCCCAGGAGGTGTGATGAA  >  NC_002947/3059716‑3060000

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.