New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4449587	43 (1.020)	3 (0.070)	3/250	NT	6.8%	intergenic (+102/‑340)	nicR/nicA	HTH‑type transcriptional repressor NicR/nicotinate dehydrogenase subunit A
	?	NC_002947	= 4449639	40 (0.980)					intergenic (+154/‑288)	nicR/nicA	HTH‑type transcriptional repressor NicR/nicotinate dehydrogenase subunit A

GCTGCGCAAGATGATCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCGGGGGCTCGGCACAGCGCGA  >  NC_002947/4449446‑4449735                                                                                                                                              |                                                                                                                                                     gctgcGCAAGATGATCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAgg                                                                                                                                               >  2:234237/1‑149 (MQ=255)  ctgcGCAAGATGAGCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGgc                                                                                                                                              <  1:216628/149‑1 (MQ=255)        aaGATGATCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGt                                                                                                                                        <  5:120346/149‑1 (MQ=255)               tCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGc                                                                                                                                  <  8:80309/148‑1 (MQ=255)                 gACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCgg                                                                                                                                <  8:1787/148‑1 (MQ=255)                  aCAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGt                                                                                                                              >  5:167145/1‑149 (MQ=255)                       gacgaGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCAcc                                                                                                                         >  3:181713/1‑149 (MQ=255)                          gagaACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTACCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCcgc                                                                                                                      >  2:27799/1‑149 (MQ=255)                                gcgGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATgg                                                                                                                >  1:250435/1‑149 (MQ=255)                                gcgGGCTGAAGATTGTTGTGACTGCCGCCATTACCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATgg                                                                                                                <  1:27799/149‑1 (MQ=255)                                  gggCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCg                                                                                                                                 <  3:184897/130‑1 (MQ=255)                                  gggCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCg                                                                                                                                 >  4:184897/1‑130 (MQ=255)                                      tGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGccagcagggccggcccattcgcgggtgaacccgctcctacggcg                                                                                                          >  3:178605‑M1/1‑105 (MQ=255)                                      tGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCgg                                                                                                                                <  8:50905/127‑1 (MQ=255)                                      tGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCgg                                                                                                                                >  7:50905/1‑127 (MQ=255)                                        aaGATTGTTGTTACTGCCGCCATTGGCGTGACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCTTCGGTGGTTGGccagcagggccggcgcattcgcgggtgaacccgctcctacggcgg                                                                                                         <  4:178605‑M1/148‑46 (MQ=255)                                               ttgtGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCgg                                                                                                                                >  8:96761/1‑118 (MQ=255)                                               ttgtGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCgg                                                                                                                                <  7:96761/118‑1 (MQ=255)                                               ttgtGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTgg                                                                                                  <  5:190764/148‑1 (MQ=255)                                               ttGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGAGACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGc                                                                                                 <  3:69463‑M2/149‑2 (MQ=255)                                                    aCTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAAtc                                                                                            <  8:12245/149‑1 (MQ=255)                                                      tGCCGCCATTGCCGTGACAGATAGGCGGGCTGAGAGATCAAGCGGATCGCGTGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCct                                                                                                       <  6:163932/136‑1 (MQ=37)                                                      tGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTCGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCct                                                                                                       >  5:163932/1‑136 (MQ=255)                                                        ccgccATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTGCa                                                                                        >  4:74486/1‑149 (MQ=255)                                                                      acaGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGccagcagggccggcccattcgcgggtgaacccgctcctacggcggcctgtgtccaaccaccgat                                                                                      <  2:101341‑M1/137‑65 (MQ=255)                                                                      acaGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCg                                                                          <  2:250435/149‑1 (MQ=255)                                                                                   cTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCcaccac                                                             >  4:167519/1‑149 (MQ=255)                                                                                     gagagaTCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCaccacc                                                            >  6:39033/1‑148 (MQ=255)                                                                                      agagaTCCACCGCATCGCGAGCAACCTCGCTCACATTGTACACGCTTCGGTGGTTGGACACAGCCCGCCGGAGGATCGGGTACACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCGGCCaccacc                                                            <  6:167145/147‑1 (MQ=21)                                                                                      agagaTCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCg                                                           >  5:269153/1‑148 (MQ=255)                                                                                       gagaTCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTa                                                         <  3:167519/149‑1 (MQ=255)                                                                                           tCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCGGATCACCGTTGCCGCCACCCCCGTATTcg                                                     >  5:189724/1‑149 (MQ=255)                                                                                             aaGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTcgcg                                                   >  7:145225/1‑149 (MQ=255)                                                                                             aaGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTcgcg                                                   >  3:103727/1‑149 (MQ=255)                                                                                              aGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCgg                                                  <  5:246749/149‑1 (MQ=255)                                                                                                       cgAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCg                                         >  7:216358/1‑149 (MQ=255)                                                                                                             aGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTa                                   <  3:74486/149‑1 (MQ=255)                                                                                                             aGCTCGCGCACATTGGACACGCATCGGTGGATCGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTa                                   <  1:185575/149‑1 (MQ=255)                                                                                                              gctcgctcACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTac                                  <  5:39033/149‑1 (MQ=255)                                                                                                                      acaTTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTAcacacaca                           >  5:268364/1‑148 (MQ=255)                                                                                                                          tGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTc                      >  7:110906/1‑149 (MQ=255)                                                                                                                            gACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCgg                    <  4:103727/149‑1 (MQ=255)                                                                                                                            gACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCgg                    <  8:216358/149‑1 (MQ=255)                                                                                                                             acacGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCggg                   <  7:214558/149‑1 (MQ=255)                                                                                                                                   aTCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGccaaccaccgatgcgtgtccaatgtgagcgagcttgctcgcgatgcgcttgatctctcaggccgcgtatctgt                         <  2:101341‑M2/137‑74 (MQ=255)                                                                                                                                       gtggtTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCGGGGGCTCGGca          >  2:87289/1‑148 (MQ=255)                                                                                                                                        tggtTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCGGGGGCTCGGca          >  2:254323/1‑147 (MQ=255)                                                                                                                                         ggtTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCCCCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCGGGGGCTCGGCACAg       >  7:42320/1‑149 (MQ=255)                                                                                                                                              gccagcagggccggcccattcgcgggtgaacccgctcctacggcggcctgtctccaaccaccgatgcgtgtccaatgtgagcgagcttgctcgcgatgcgcttgatctctcaggccgcgtatctgtgacggcaatggcggcagtcacaa  <  3:69463‑M1/149‑149 (MQ=255)                                                                                                                                              |                                                                                                                                                     GCTGCGCAAGATGATCGACAGCGACGAGAACGCGGGCTGAAGATTGTTGTGACTGCCGCCATTGCCGTCACAGATACGCGGCCTGAGAGATCAAGCGCATCGCGAGCAAGCTCGCTCACATTGGACACGCATCGGTGGTTGGACACAGGCCGCCGTAGGAGCGGGTTCACCCGCGAATGGGCCGGCCCTGCTGGCCAATCTCCACCTGCCGATCACCGTTGCCGCCACCACCGTATTCGCGGGTAAACCCGCTCCTACACACACAAACTCGGGGGCTCGGCACAGCGCGA  >  NC_002947/4449446‑4449735

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.