New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 2274147	32 (0.760)	6 (0.150)	5/246	NT	15.3%	coding (220/1041 nt)	PP_2004	AraC family transcriptional regulator
	?	NC_002947	= 2274179	36 (0.890)					coding (188/1041 nt)	PP_2004	AraC family transcriptional regulator

GTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCTTCGCTCAAAGGCTGGACAAAA  >  NC_002947/2274031‑2274325                                                                                                                                                     |                                                                                                                                                   gTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATgg                                                                                                                                                    >  6:13433/1‑149 (MQ=255) gTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATgg                                                                                                                                                    <  8:55120/149‑1 (MQ=255)       cGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGctgcgt                                                                                                                                              >  7:26504‑M2/1‑143 (MQ=255)                    agcagGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTgg                                                                                                                                            >  1:105521/1‑138 (MQ=255)                             cgcgcgGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCggg                                                                                                                         <  7:100080/148‑1 (MQ=255)                             cgcgcgGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCggg                                                                                                                         <  7:84239/148‑1 (MQ=255)                               cgcgGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTa                                                                                                                      >  6:199306/1‑149 (MQ=255)                                          ccAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGt                                                                                                           >  4:211471/1‑149 (MQ=255)                                           cAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCggg                                                                                                                         <  3:113261/134‑1 (MQ=255)                                           cAGGGAGGGGGCCTGGGCCGCAGTGACCCCGGCCAGCCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATAAGCAGACATAAAGCGGCCTCACCGCTCAATACGATGGCTGAGTGGCCCATGTGCATGTacaggg                                                                                                                         >  4:113261/1‑129 (MQ=255)                                                      ccTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCg                                                                                               >  1:161239/1‑149 (MQ=255)                                                      ccTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCACACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCa                                                                                                                                  <  5:242053/114‑1 (MQ=255)                                                      ccTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCACACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCa                                                                                                                                  >  6:242053/1‑114 (MQ=255)                                                          ggCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCa                                                                                           <  3:31240/149‑1 (MQ=255)                                                                     ccccGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTcgcg                                                                                <  3:211471/149‑1 (MQ=255)                                                                      cccGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGt                                                                               >  3:110873/1‑149 (MQ=255)                                                                       ccGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTc                                                                              >  4:177809/1‑149 (MQ=255)                                                                            cAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGc                                                                         <  4:178777/149‑1 (MQ=255)                                                                               gCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCg                                                                                               <  2:96342/124‑1 (MQ=255)                                                                               gCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCg                                                                                               >  1:96342/1‑124 (MQ=255)                                                                                        cgcCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCgca                                                             <  5:13433/149‑1 (MQ=255)                                                                                           cAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCgcagc                                                           >  6:98403/1‑148 (MQ=255)                                                                                            aGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCaa                                                         >  3:221165/1‑149 (MQ=255)                                                                                                     aGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAgg                                                <  4:178280/149‑1 (MQ=255)                                                                                                           cccATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGctgcgtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgaggccgcgcgtaccctgctgcgtttc                                           <  1:126727‑M2/148‑106 (MQ=255)                                                                                                           cccATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGctgcgtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgaggccgcgcgtaccctgctgcgtttc                                           <  6:47364‑M2/148‑106 (MQ=255)                                                                                                             cATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGctgcgtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgag                                                                   <  3:4985‑M2/122‑82 (MQ=255)                                                                                                             cATACGCAGACCTAAAGCGGCCTAACCGCTCATTTCTTTGGctgggtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgag                                                                   >  4:4985‑M2/1‑41 (MQ=255)                                                                                                              aTACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGcc                                       >  3:23183/1‑149 (MQ=255)                                                                                                               tACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGctgcgtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgaggccgcgcgtaccctgctgcgtttcgagcc                                      <  8:225327‑M2/149‑111 (MQ=255)                                                                                                                 cGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCa                                     <  4:23183/148‑1 (MQ=255)                                                                                                                    aGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAg                                                                           >  5:38965/1‑107 (MQ=255)                                                                                                                    aGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAg                                                                           <  6:38965/107‑1 (MQ=255)                                                                                                                        cTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTcgcg                              >  5:221135/1‑148 (MQ=255)                                                                                                                         tAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTcgcg                              >  5:30785/1‑147 (MQ=255)                                                                                                                          aaaGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAg                           >  5:155322/1‑149 (MQ=255)                                                                                                                            aGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAggg                         <  6:221135/149‑1 (MQ=255)                                                                                                                              cGGCCTCACCGCTCATTTCGATGGctgcgtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgaggccgcgcgtaccctgctgcgtttcgagccgctttacgcgaccaa                       >  7:225327‑M2/1‑24 (MQ=255)                                                                                                                              cGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCt                       >  4:120348/1‑149 (MQ=255)                                                                                                                                 ccTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTcg                                <  7:64861/137‑1 (MQ=255)                                                                                                                                 ccTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTcg                                >  8:64861/1‑137 (MQ=255)                                                                                                                                  cTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCTTCGc                   <  2:161239/149‑1 (MQ=255)                                                                                                                                       cGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCTTCGCTCaaa              <  3:177809/149‑1 (MQ=255)                                                                                                                                        gCTCATTTCGATGGCTGCGTGGCCCATGTGCATGAAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCTTCGCTCAAAg             >  1:171930/1‑149 (MQ=255)                                                                                                                                              ttCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCTTCGCTCAAAGGCTGGa       >  7:58709/1‑149 (MQ=255)                                                                                                                                               tCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCTTCGCTCAAAGGCTGGa       <  4:43659/148‑1 (MQ=255)                                                                                                                                                   tGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCTTCGCTCAAAGGCTGGACaaaa  <  4:110873/149‑1 (MQ=255)                                                                                                                                                   tGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAACAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCTTCGCTCAAAGGCTGGACaaaa  >  4:53700/1‑149 (MQ=255)                                                                                                                                                    ggCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCTTCGCTCAAAGGCTGGACaaaa  <  6:155322/148‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                   GTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCAGCTCGCGCAGGGCTTCGCTCAAAGGCTGGACAAAA  >  NC_002947/2274031‑2274325

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.