New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4136298 =	43 (0.660)	4 (0.060)	4/256	NT	8.8%	coding (507/921 nt)	PP_3640	AraC family transcriptional regulator
	?	NC_002947	4136336 =	41 (0.650)					coding (545/921 nt)	PP_3640	AraC family transcriptional regulator

CTCTGCTCGCTGATTGTCGAGGGTCTCGCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGAC  >  NC_002947/4136152‑4136441                                                                                                                                                   |                                                                                                                                                ctctGCTCGCTGATTGTCGAGGGTCTCGCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCt                                                                                                                                               >  1:340436/1‑149 (MQ=255)      cTCGCTGATTGTCGAGGGTCTCGCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGAc                                                                                                                                            <  8:159053/147‑1 (MQ=255)                gTCGAGGGTCTCGCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTtgttgt                                                                                                                                 <  4:139613/148‑1 (MQ=255)                    aGGGTCTCGCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTg                                                                                                                            >  1:227330/1‑149 (MQ=255)                     aagcggccatgttctccatggtccaggtttgccccggatgctcgatcaattgctcaagcaatccggcaaatgccggctggcgggcgagggcgaccagcccgcccagcgattgccctgcgtgcacctGCTGACGCACTTGTTGTTCCTg                                                                                                                            <  8:255875‑M1/22‑1 (MQ=255)                      ggTCTCGCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGt                                                                                                                           <  8:167055/148‑1 (MQ=255)                      ggTCTCGCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTa                                                                                                                          <  6:173813/149‑1 (MQ=255)                        tctcGCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGACCGGCTGACGCACTTGTTGTTCCTGTACg                                                                                                                        >  4:317569/1‑149 (MQ=255)                            gCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCt                                                                                                                             <  4:35699/140‑1 (MQ=255)                            gCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCt                                                                                                                             >  3:35699/1‑140 (MQ=255)                             cTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGtgctg                                                                                                                   >  6:197093/1‑149 (MQ=255)                                aCTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGtgctgc                                                                                                                  <  7:84049/147‑1 (MQ=255)                                  tGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTgcgc                                                                                                                >  1:157537/1‑147 (MQ=255)                                     aTCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCcag                                                                                                             >  4:370322/1‑147 (MQ=255)                                      tCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCcagca                                                                                                           <  5:197093/148‑1 (MQ=255)                                      atggtccaggtttgccccggatgctcgatcaattgctcaagcaatccggcaaatgccggctggcgggcgagggcgaccagcccgcccagcgattgccctgcgtgcacctGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCcagcag                                                                                                          >  7:255875‑M1/110‑149 (MQ=255)                                            tACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCAc                                                                                                    >  3:42904/1‑149 (MQ=255)                                              cgcgCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGTCGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACg                                                                                                   <  5:104656/148‑1 (MQ=255)                                                     aaGATCCCAGCGGCAGCGCAGCGCGGGCGGTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCaa                                                                                           >  1:75845/1‑149 (MQ=255)                                                     aaGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCaa                                                                                           >  5:344361/1‑149 (MQ=255)                                                           ccAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCt                                                                                      <  2:340436/148‑1 (MQ=255)                                                                ggCAGCGCGGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTgggcgg                                                                                >  1:229833/1‑149 (MQ=255)                                                                 gcagcgcagcGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGc                                                                                                                                                >  7:177899/1‑84 (MQ=255)                                                                 gcagcgcagcGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGc                                                                                                                                                <  8:177899/84‑1 (MQ=255)                                                                    gcgcagcgcGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTg                                                                            >  5:69153/1‑149 (MQ=255)                                                                       cagcgcGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGtc                                                                         <  3:70700/149‑1 (MQ=255)                                                                       cagcgcGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGtc                                                                         <  4:42904/149‑1 (MQ=255)                                                                                 gcTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGtcgccctcgccc                                                               <  8:39893/149‑1 (MQ=255)                                                                                     ggcaaatgccggctggcgggcgagggcgaccagcccgcccagcgattgcccttcgtgcacctGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGt                                                                                                        >  5:415365‑M1/63‑104 (MQ=255)                                                                                     ggcaaatgccggctggcgggcgagggcgaccagcccgcccagcgattgcccttcgtgcacctGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGt                                                                                                        <  6:415365‑M1/42‑1 (MQ=255)                                                                                        gggCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGtcgccctcgcc                                                                >  1:314259/1‑141 (MQ=255)                                                                                        gggCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGtcgccctcgcc                                                                <  2:314259/141‑1 (MQ=255)                                                                                        gggCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGcc                                                        >  2:225735/1‑149 (MQ=255)                                                                                               tCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCAttt                                                 <  3:317569/149‑1 (MQ=255)                                                                                                  tGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGcc                                              >  4:65777/1‑149 (MQ=255)                                                                                                   ggAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCg                                             >  2:188285/1‑149 (MQ=255)                                                                                                            ccGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCtt                                     <  2:157537/148‑1 (MQ=255)                                                                                                                  agaTGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAAt                              <  2:229833/149‑1 (MQ=255)                                                                                                                     tGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGa                           <  2:75845/149‑1 (MQ=255)                                                                                                                       cTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATc                         <  6:344361/149‑1 (MQ=255)                                                                                                                        tGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATc                         >  4:161242/1‑148 (MQ=255)                                                                                                                        tGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATc                         >  6:48407/1‑148 (MQ=255)                                                                                                                         gggCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTg                                    >  6:314006/1‑136 (MQ=255)                                                                                                                         gggCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTg                                    <  5:314006/136‑1 (MQ=255)                                                                                                                              aTCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTGCGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATAGATCGAGCATc                  >  1:83886/1‑149 (MQ=255)                                                                                                                                 acaGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCgg               >  7:354856/1‑149 (MQ=255)                                                                                                                                   aGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCgggg             >  2:117106/1‑149 (MQ=255)                                                                                                                                     aTGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGc            >  6:381338/1‑148 (MQ=255)                                                                                                                                           cTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGtcgcc                                                                      <  2:218367/84‑1 (MQ=255)                                                                                                                                           cTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGtcgcc                                                                      >  1:218367/1‑84 (MQ=255)                                                                                                                                              gAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGa   <  2:85079/148‑1 (MQ=255)                                                                                                                                              gAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGAc  <  3:370322/149‑1 (MQ=255)                                                                                                                                               aaCGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGa                       <  6:191654/127‑1 (MQ=255)                                                                                                                                               aaCGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGa                       >  5:191654/1‑127 (MQ=255)                                                                                                                                                   |                                                                                                                                                CTCTGCTCGCTGATTGTCGAGGGTCTCGCTGACTGGATCTTGTTACGCGCTGAAGATCCCAGCGGCAGCGCAGCGCGGGCGCTGTTCGGGCTGATCCTGGAAGAATGCCGGCGAGATGCTGGGCCATCACAGATGCTACTGGAACGGCTGACGCACTTGTTGTTCCTGTACGTGCTGCGCCAGCAGGTGCACGCAGGGCAATCGCTGGGCGGGCTGGTCGCCCTCGCCCGCCAGCCGGCATTTGCCGGATTGCTTGAGCAATTGATCGAGCATCCGGGGCAAACCTGGAC  >  NC_002947/4136152‑4136441

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.