New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5779815 =	31 (0.720)	3 (0.070)	3/244	NT	8.6%	coding (63/1794 nt)	cvrA	K(+)/H(+) antiporter NhaP
	?	NC_002947	5779855 =	34 (0.820)					coding (103/1794 nt)	cvrA	K(+)/H(+) antiporter NhaP

GTATCGCTTTACAGCCTGCGCCGGCATCAGGTTAGAATCGATTGGCACGCGACCTGCTAGCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCGCCGGTGTCGATGGTGGCGGCATCAT  >  NC_002947/5779690‑5779961                                                                                                                              |                                                                                                                                                   gTATCGCTTTACAGCCTGCGCCGGCATCAGGTTAGAATCGATTGGCACGCGACCTGCTAGCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATc                                                                                                                            >  1:582798/1‑150 (MQ=255)   aTCGCTTTACAGCCTGCGCCGGCATCAGGTTAGAATCGATTGGCACGCGACCTGCTAGCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATc                                                                                                                                              >  2:43693/1‑130 (MQ=255)   aTCGCTTTACAGCCTGCGCCGGCATCAGGTTAGAATCGATTGGCACGCGACCTGCTAGCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATc                                                                                                                                              <  1:43693/130‑1 (MQ=255)                      cGGCATCAGGTTAGAATCGATTGGCACGCGACCTGCTAGCTGTTGCTGAATGCGATACCACCCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGCTGCAAGCACCACCAACAGCCTGTTCCTCATCGCCGCCTTCCTGTTGGGCGCa                                                                                                       >  2:302427/1‑150 (MQ=255)                       tgccgccaccatcgacaccggcgagcatgccgacggcgaggatgatgaccagaatagggatacccaggcgcgacgacagcgagctgaccaggatacttgcaccCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCaa                                                                                                      >  1:43367‑M1/104‑150 (MQ=255)                        gCATCAGGTTAGAATCGATTGGCACGCGACCTGCTAGCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAg                                                                                                     >  1:35820/1‑150 (MQ=255)                             aGGTTAGAATCGATTGGCACGCGACCTGCTAGCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATc                                                                                                                                              <  2:1001274/104‑1 (MQ=255)                             aGGTTAGAATCGATTGGCACGCGACCTGCTAGCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATc                                                                                                                                              >  1:1001274/1‑104 (MQ=255)                                    aaTCGATTGGCACGCGACCTGCTAGCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAg                                                                                         >  2:1016758/1‑150 (MQ=255)                                     acaccggcgagcatgccgacggcgaggatgatgaccagaatagggatacccaggcgcgacgacagcgagctgaccaggatacttgcaccCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCtggtgg                                                                                                            >  2:343348‑M1/90‑130 (MQ=255)                                     acaccggcgagcatgccgacggcgaggatgatgaccagaatagggatacccaggcgcgacgacagcgagctgaccaggatacttgcaccCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCtggtgg                                                                                                            <  1:343348‑M1/41‑1 (MQ=255)                                                         cTAGCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTggg                                                                    >  1:110949/1‑150 (MQ=255)                                                            gCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTAt                                                                 >  1:948268/1‑150 (MQ=255)                                                              tGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATcc                                                               <  1:633867/150‑1 (MQ=255)                                                                                 aCGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCt                                            >  1:431346/1‑150 (MQ=255)                                                                                 aCGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCt                                            >  2:864673/1‑150 (MQ=255)                                                                                  cGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTggtgggt                                                                                                          <  1:429940/87‑1 (MQ=255)                                                                                  cGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTggtgggt                                                                                                          >  2:429940/1‑87 (MQ=255)                                                                                        ttCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCATCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTTGGGGTCCCTATTCTGGTCATCATCATAGACGTc                                     >  2:738218/1‑150 (MQ=255)                                                                                         tCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGCTTAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCACCATCCACGCCGTCg                                    >  2:964131/1‑150 (MQ=255)                                                                                           cccGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGc                                  >  1:1019895/1‑150 (MQ=255)                                                                                            ccGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCa                                 >  1:864890/1‑150 (MQ=255)                                                                                            ccGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCa                                 >  2:151979/1‑150 (MQ=255)                                                                                                  tctcGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCg                           >  1:768951/1‑150 (MQ=255)                                                                                                       gAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGt                                                                                            <  2:900456/80‑1 (MQ=255)                                                                                                       gAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGt                                                                                            >  1:900456/1‑80 (MQ=255)                                                                                                       gAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCGCCGgt                      <  2:740126/150‑1 (MQ=255)                                                                                                       gAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCGCCGgt                      <  1:151979/150‑1 (MQ=255)                                                                                                             cTGCCTTTGGGTGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCGCCGGTGTCGAt                <  1:1016758/150‑1 (MQ=255)                                                                                                             cTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCGCCGGTGTCTAt                <  2:948268/150‑1 (MQ=255)                                                                                                             cTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCGCCGGTGTCGAt                >  2:706618/1‑150 (MQ=255)                                                                                                                   ttGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGGCTGGGTATCCCTCTTCTGGCCACCCTCCTCGCCGTCGGCATGCTCGCCGGTGTCGATGGTggc          <  2:617985/150‑1 (MQ=255)                                                                                                                      gATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCGCCGGTGTCGATGGTggcggc       >  2:521770/1‑150 (MQ=255)                                                                                                                        tGCAAGCATCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCGCCGGTGTCGATGGTGGCGGcat     <  1:738218/150‑1 (MQ=255)                                                                                                                           aaGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATc                                                                                                 >  2:121084/1‑55 (MQ=255)                                                                                                                           aaGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATc                                                                                                 <  1:121084/55‑1 (MQ=255)                                                                                                                           aaGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCGCCGGTGTCGATGGTGGCGGcatcat  >  1:416373/1‑150 (MQ=255)                                                                                                                              |                                                                                                                                                   GTATCGCTTTACAGCCTGCGCCGGCATCAGGTTAGAATCGATTGGCACGCGACCTGCTAGCTGTTGCTGAATGCGCTACCACGCCCCTTCCCCGCTGTCTCGGAGTACCTGCCTTTGGATGCAAGCACCATCAACAGCCTGTTCCTGATCGGCGCATTGCTGGTGGGTGCAAGTATCCTGGTCAGCTCGCTGTCGTCGCGCCTGGGTATCCCTATTCTGGTCATCATCCTCGCCGTCGGCATGCTCGCCGGTGTCGATGGTGGCGGCATCAT  >  NC_002947/5779690‑5779961

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.