New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	6098661 =	56 (1.080)	3 (0.060)	3/256	NT	5.9%	coding (428/867 nt)	PP_5350	RpiR family transcriptional regulator
	?	NC_002947	6098736 =	42 (0.840)					coding (353/867 nt)	PP_5350	RpiR family transcriptional regulator

CTTGCATGTGGGGGTCGGAATACGCTGCCGCGCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACTGACCGAAGCTGGCCCCGGCAGCCAGGCTTTGCGCCAGC  >  NC_002947/6098590‑6098882                                                                                                                                                   |                                                                                                                                                    cTTGCATGTGGGGGTCGGAATACGCTGCCGCGCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAgc                                                                                                                                                   <  2:195235/149‑1 (MQ=255)      aTGTGGGGGTCGGAATACGCTGCCGCGCGGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTg                                                                                                                                              <  8:249023/149‑1 (MQ=255)       aagatcttctacaccaccctgcacaccctgatggaagtgcgcgagcaccttgatccgcaggcgctGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGc                                                                                                                                             >  6:122470‑M1/66‑149 (MQ=255)            cttcgacaccaccctgcacaccctgatggaagtgcgcgagcaccttgatccgcaggcgctGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAgc                                                                                                                                                   <  8:265262‑M1/78‑1 (MQ=255)            cttcgacaccaccctgcacaccctgatggaagtgcgcgagcaccttgatccgcaggcgctGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAgc                                                                                                                                                   >  7:265262‑M1/61‑138 (MQ=255)             ggTCGGAATACGCTGCCGCGCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCa                                                                                                                                       <  4:303694/149‑1 (MQ=255)                cGGAATACGCTGCCGCGCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAgcgc                                                                                                                                                 >  1:212222/1‑136 (MQ=255)                cGGAATACGCTGCCGCGCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAgcgc                                                                                                                                                 <  2:212222/136‑1 (MQ=255)                cGGAATACGCTGCCGCGCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAg                                                                                                                                     <  1:203277/148‑1 (MQ=255)                cGGAATACGCTGCCGCGCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAg                                                                                                                                     >  2:203277/1‑148 (MQ=255)                   aaTACGCTGCCGCGCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGc                                                                                                                                 >  8:78174/1‑149 (MQ=255)                            ccGCGCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCa                                                                                                                          <  2:254830/147‑1 (MQ=255)                             cgcgCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACtt                                                                                                                       >  8:218696/1‑149 (MQ=255)                                gcTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑Ca                                                                                                                   <  2:23664/149‑1 (MQ=255)                                    agcagcAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCa                                                                                                                <  7:78174/148‑1 (MQ=255)                                     gcagcaGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTTCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAgg                                                                                                              <  4:46173/149‑1 (MQ=255)                                            gCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGtgtg                                                                                                         >  3:155126/1‑147 (MQ=255)                                               gaagaaCTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAggg                                                                                                    <  2:2542/149‑1 (MQ=255)                                                 agaaCTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGggtg                                                                                                  <  6:261379/149‑1 (MQ=255)                                                    aCTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGgtggtg                                                                                               >  4:62012/1‑149 (MQ=255)                                                        gtgCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCg                                                                                            <  7:64138/148‑1 (MQ=255)                                                          gCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAg                                                                                                                                     <  2:103427/106‑1 (MQ=255)                                                             gggCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCCGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATc                                                                                      >  1:221489/1‑149 (MQ=255)                                                             gggCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATc                                                                                      >  5:253294/1‑149 (MQ=255)                                                              ggCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATc                                                                                      <  3:62012/148‑1 (MQ=255)                                                               gcaggcgctgcaacaagccgtgagcgccatggcccaggcgcagcgggtagagttctatggctttggcgcgtccggtgcggttgcAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTAGAAGATCtt                                                                                    >  6:122470‑M2/85‑149 (MQ=255)                                                                 aTCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCa                                                                                  <  7:248774/149‑1 (MQ=255)                                                                   cGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAgg                                                                                >  6:114032/1‑149 (MQ=255)                                                                     gctgcaacaagccgtgagcgccatggcccaggcgcagcgggtagagttctatggctttggcgcgtccggtgcggttgcAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAg                                                                                         >  7:265262‑M2/79‑138 (MQ=255)                                                                     gctgcaacaagccgtgagcgccatggcccaggcgcagcgggtagagttctatggctttggcgcgtccggtgcggttgcAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAg                                                                                         <  8:265262‑M2/60‑1 (MQ=255)                                                                           ACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGGTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTc                                                                        >  7:112891‑M1/1‑149 (MQ=255)                                                                                aCCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGa                                                                   >  1:176706/1‑149 (MQ=255)                                                                                    gACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTa                                                                           >  3:317575/1‑137 (MQ=255)                                                                                    gACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTa                                                                           <  4:317575/137‑1 (MQ=255)                                                                                       gcgcCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATc                                                            >  3:204296/1‑149 (MQ=255)                                                                                       gcgcCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATc                                                            <  4:36539/149‑1 (MQ=255)                                                                                              aGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCg                                                     >  6:258596/1‑149 (MQ=255)                                                                                                   tAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGAt                                                >  8:147605/1‑149 (MQ=255)                                                                                                        ctctACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCg                                            >  8:134667/1‑148 (MQ=255)                                                                                                         tctACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGaa                                          >  4:261333/1‑149 (MQ=255)                                                                                                           tACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACt                                        >  8:41265/1‑149 (MQ=255)                                                                                                             cccGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGa                                                                   <  8:127215/120‑1 (MQ=255)                                                                                                             cccGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGa                                                                   >  7:127215/1‑120 (MQ=255)                                                                                                                    cgcCTGGGCCATGGCGCTCACGGCTTGTTCCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCGGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACTGACCGAAGc                               <  2:279127/149‑1 (MQ=255)                                                                                                                       cTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACTGACCGAAGCTgg                            <  7:147605/149‑1 (MQ=255)                                                                                                                        tGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGt                                                    >  7:53162/1‑124 (MQ=255)                                                                                                                        tGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGt                                                    <  8:53162/124‑1 (MQ=255)                                                                                                                          ggCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACTGACCGAAGCTGGccc                         <  4:204296/149‑1 (MQ=255)                                                                                                                            ccATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACTGACCGAAGCTGGCCCCg                       >  6:17473/1‑149 (MQ=255)                                                                                                                                       aCGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACTGACCGAAGCTGGCCCCGGCAGCCAGGc             <  2:176706/148‑1 (MQ=255)                                                                                                                                       aCGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACTGACCGAAGCTGGCCCCGGCAGCCAGGCt            >  4:98779/1‑149 (MQ=255)                                                                                                                                       aCGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACTGACCGAAGCTGGCCCCGGCAGCCAGGCt            >  5:243654/1‑149 (MQ=255)                                                                                                                                               ttgcAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACTGACCGAAGCTGGCCCCGGCAGCCAGGCTTTGCGCCa    <  5:114032‑M2/145‑1 (MQ=255)                                                                                                                                                  cAGCGCCTGCGGATCAAGGTGCTCGCGCACTTCGCATCAGGGTGTGCAGGGTGGTGTCGATGATCTTCAGGCTGTAGTCGGCGACCGATTCGTCTTCGTGGATGGCGAACTGACCGAAGCTGGCCCCGGCAGCCAGGCTTTGCGCCAGc  >  1:39687‑M2/2‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                    CTTGCATGTGGGGGTCGGAATACGCTGCCGCGCTGAGCAGCAGGCGGAAGAACTTGTGCTGGGCATCGGCCGCAACCGCACCGGACGCGCCAAAGCCATAGAACTCTACCCGCTGCGCCTGGGCCATGGCGCTCACGGCTTGTTGCAGCGCCTGCGGATCAAGGTGCTCGCGCACTTC‑CATCAGGGTGTGCAGGGTGGTGTCGAAGATCTTCAGGCTGTAGTCGGCGACCGAATCGTCTTCGTGGATGGCGAACTGACCGAAGCTGGCCCCGGCAGCCAGGCTTTGCGCCAGC  >  NC_002947/6098590‑6098882

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.