New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4449631	32 (1.380)	3 (0.130)	3/242	NT	10.7%	intergenic (+102/‑340)	nicR/nicA	HTH‑type transcriptional repressor NicR/nicotinate dehydrogenase subunit A
	?	NC_002947	= 4449683	19 (0.850)					intergenic (+154/‑288)	nicR/nicA	HTH‑type transcriptional repressor NicR/nicotinate dehydrogenase subunit A

TGTACCTGCTGCGCAAGATGATCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCGGGGGCTCGGCACA  >  NC_002947/4449483‑4449773                                                                                                                                                     |                                                                                                                                               tGTACCTGCTGCGCAAGATGATCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGa                                                                                                                                               <  2:431145/150‑1 (MQ=255)     ccTGCTGCGCAAGATGATCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGAcaca                                                                                                                                           >  2:369542/1‑150 (MQ=255)              cAAGATGATCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAg                                                                                                                                          <  2:510560/142‑1 (MQ=255)              cAAGATGATCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAg                                                                                                                                          >  1:510560/1‑142 (MQ=255)                                       gcgGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATggg                                                                                                         <  2:527439/150‑1 (MQ=255)                                       gcgGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATggg                                                                                                         >  1:192284/1‑150 (MQ=255)                                        cgGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGggc                                                                                                        <  2:531489/150‑1 (MQ=255)                                           gCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGggccgg                                                                                                     >  1:18483/1‑150 (MQ=255)                                             tGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGATCACAGTGGAGACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGggccggcc                                                                                                   >  1:10969/1‑150 (MQ=255)                                               aaGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGTGGGTTAACCCGCGAATGGGCCGGCCct                                                                                                 >  1:188878/1‑150 (MQ=255)                                                 gATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCctgc                                                                                               >  2:64707/1‑150 (MQ=255)                                                 gATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCctgc                                                                                               >  1:106637/1‑150 (MQ=255)                                                   ttgttgTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCctgctg                                                                                             <  1:369542/150‑1 (MQ=255)                                                    tgttgtGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTgg                                                                                            <  2:18483/150‑1 (MQ=255)                                                         tgACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAAt                                                                                       >  1:142483/1‑150 (MQ=255)                                                            cTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGccagcagggccggcccattcgcgggtgaacccgctcctacggcggcctgtgtccaaccac                                                                                    <  2:487594‑M1/150‑61 (MQ=255)                                                               ccgccATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCAc                                                                                 <  2:416202/150‑1 (MQ=255)                                                                      tGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGa                                                                          <  2:72410/150‑1 (MQ=255)                                                                                        gCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGc                                                                                           >  2:40805‑M2/1‑114 (MQ=255)                                                                                        gCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGc                                                                                           <  1:40805‑M2/115‑2 (MQ=255)                                                                                           tGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGccagcagggccggcccattcgcgggtgaacccgctcctacggcggcctgtgtc                                                                                           <  2:93026‑M1/112‑54 (MQ=255)                                                                                           tGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGccagcagggccggcccattcgcgggtgaacccgctcctacggcggcctgtgtc                                                                                           >  1:93026‑M1/1‑59 (MQ=255)                                                                                           tGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCg                                                     >  1:560770/1‑150 (MQ=255)                                                                                                 aTCAAGCGCATCGCGAGCAAGCTCGCCCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAAt                                                                                       >  2:604622/1‑110 (MQ=255)                                                                                                 aTCAAGCGCATCGCGAGCAAGCTCGCCCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAAt                                                                                       <  1:604622/110‑1 (MQ=255)                                                                                                    aaGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCgg                                            >  1:450728/1‑150 (MQ=255)                                                                                                        gcATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAg                                                                                                                                >  2:428936/1‑62 (MQ=255)                                                                                                        gcATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAg                                                                                                                                <  1:428936/62‑1 (MQ=255)                                                                                                               gAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCACTCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCt                                 <  2:142483/150‑1 (MQ=255)                                                                                                                         gctcACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCAACCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTacacaca                       >  2:392298/1‑150 (MQ=255)                                                                                                                                  ggACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCgg              <  1:161672/150‑1 (MQ=255)                                                                                                                                  ggACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCgg              <  1:64707/150‑1 (MQ=255)                                                                                                                                   gACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCggg             <  2:10969/150‑1 (MQ=255)                                                                                                                                   gACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCCGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCggg             <  1:119473/150‑1 (MQ=255)                                                                                                                                      acGCATCGGGGGTTGGACCCAGGCCACCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTCGTGGCCAAGCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATACGCGCGTAAACCCGCTCTTACACACACAAACTGAGGGGc          >  2:466051/1‑150 (MQ=18)                                                                                                                                          aTCGGTGGTTGGACACAGGCCGCCGTAGGAGTGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCGGGGGCTCgg      <  2:188878/150‑1 (MQ=255)                                                                                                                                             ggtggtTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTa                             <  2:331387/124‑1 (MQ=255)                                                                                                                                             ggtggtTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTa                             >  1:331387/1‑124 (MQ=255)                                                                                                                                              gtggtTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGccaaccaccgatgcgtgtccaatgtgagcgagcttgctcgcgatgcgcttgatctctcaggccgcgtatctgtgacggcaatggcggcag  <  2:487594‑M2/150‑91 (MQ=255)                                                                                                                                              gtggtTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCGGGGGCTCGGcaca  >  2:239999/1‑150 (MQ=255)                                                                                                                                                     gccagcagggccggcccattcgcgggtgaacccgctcctacggcggcctgtgtccaaccaccgatgcgtgtccaatgtgagcgagcttgctcgcgatgcgcttgatctctcaggc                              <  1:40805‑M1/115‑115 (MQ=255)                                                                                                                                                     gccagcagggccggcccattcgcgggtgaacccgctcctacggcggcctgtgtccaaccaccgatgcgtgtccaatgtgagcgagcttgctcgcgatgcgcttgatctctcaggc                              >  2:40805‑M1/1‑1 (MQ=255)                                                                                                                                                     gACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGccaaccaccgatgcgtgtccaatgtgagcgagcttgctcgcgatgcgcttgatctctca                                 >  1:93026‑M2/1‑53 (MQ=255)                                                                                                                                                     gACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGccaaccaccgatgcgtgtccaatgtgagcgagcttgctcgcgatgcgcttgatctctca                                 <  2:93026‑M2/112‑60 (MQ=255)                                                                                                                                                     |                                                                                                                                               TGTACCTGCTGCGCAAGATGATCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCGGGGGCTCGGCACA  >  NC_002947/4449483‑4449773

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.