New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3947984	18 (0.420)	3 (0.090)	3/198	NT	14.3%	coding (109/1797 nt)	PP_3483	type II secretion system protein
	?	NC_002947	= 3948013	22 (0.650)					coding (80/1797 nt)	PP_3483	type II secretion system protein

CGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTCCCCT  >  NC_002947/3947866‑3948162                                                                                                                                                     |                                                                                                                                                      cGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTGTTCGCGTGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcc                                                                                                                                                     >  1:690490‑M2/1‑148 (MQ=255)      cAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcctgtgg                                                                                                                                                <  1:286782‑M2/150‑8 (MQ=255)             tCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcctgtgggagcggg                                                                                                                                         >  2:286782‑M2/1‑136 (MQ=255)                      cgcTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcctgtgggagcgggcatgcccgc                                                                                                                                >  1:720339‑M2/1‑127 (MQ=255)                                            gggCGTGGGCGAGGAGGTCGCGGCTGTAGGCGGAATGGTTTGCTGTGTTCTGCGCGGGCATGCCCGCTCCCACAGGTA‑CAGCACAGGTCTGTGGGCTGCATCCATCCTCTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTg                                                                                                          <  1:339472/150‑1 (MQ=37)                                              gCCTGGGCCGGGAGGTCGCGGGGGTAGGCGGAAATTTCTGCTGGGTTCGTCGCGGGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCa                                                                                                        <  1:650739/150‑1 (MQ=255)                                                cTGGGCCAGGAGGGCGAGTCATGAGGCGGAAAGGGTTGCTGGGTTCTCCGCGGGCCTGCCCCCTCCCACAGGTA‑TATCCCAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGa                                                                                                      <  1:899106/150‑1 (MQ=255)                                                                  ggggCAGGCGGAACTGTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTG‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGaa                                                                                    <  2:841769/150‑1 (MQ=255)                                                                   gggTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAAt                                                                                   >  1:1103601/1‑150 (MQ=255)                                                                       aGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCACGC‑CCCAAATGCAGTTTCACAGGTGTGTGGGCTGGATACATCCTGTGGGAGTGTGGAACCCCGCGAAAACGTCGGTGCAGGCTTTGCAGAGTCCGGGGTTGCATCGAATGCtt                                                                               >  1:862354/1‑150 (MQ=255)                                                                          cGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTg                                                                            <  2:1103601/150‑1 (MQ=255)                                                                                            tcttcGCGGGCATGCCCGCTCCGAGAGGGA‑CATTACAGCTCTGTGGGCTGCATACATCCAGAGAAAGCGGGAACGCCCGCGAAGACGCCGGCCTAGGCTTGGCAGATTCAGGGCATGCATCGAGCGCTTCTGGGACGGTCGGCGAccagg                                                          >  2:143958/1‑146 (MQ=255)                                                                                              ttcGCGGGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcctgtgg                                                                                                                                                >  1:976537‑M2/1‑55 (MQ=255)                                                                                              ttcGCGGGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcctgtgg                                                                                                                                                <  2:976537‑M2/62‑8 (MQ=255)                                                                                                     gCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcctgt                                                                                                                                                  >  1:468988‑M2/1‑48 (MQ=255)                                                                                                     gCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcctgt                                                                                                                                                  <  2:468988‑M2/53‑6 (MQ=255)                                                                                                       aTGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTg                                                                                                                   <  1:85395/82‑1 (MQ=255)                                                                                                       aTGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTg                                                                                                                   >  2:85395/1‑82 (MQ=255)                                                                                                           ccGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcctgtgggagcgggcatgcccgcgaagaacccagcaaaaatttccgcctacccccgcgacctcctggcccagccccgtctgcaagccactgacgagcgcctgctcgac                                           <  2:1028828‑M2/150‑109 (MQ=255)                                                                                                           ccGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATc                                                                                       >  1:520684/1‑106 (MQ=255)                                                                                                           ccGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATc                                                                                       <  2:520684/106‑1 (MQ=255)                                                                                                           ccGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCg                                           >  2:1020601/1‑150 (MQ=255)                                                                                                                 ccACAGGTA‑CATCCCAGGTCTGTGGGCTGCATACATCCTGTGGGATCGGTCATGCACGCGACGCCGTCGGTGCAGGCTTTTAAGATTCCGAGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAggct                                     >  2:486915/1‑150 (MQ=255)                                                                                                                 ccACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcctgtgggagcgggcatgcccgcgaagaacccagcaaaaatttccgcctacccccgcgacctcctggcccaggccc                                                                           <  1:713303‑M2/112‑77 (MQ=255)                                                                                                                 ccACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATcctgtgggagcgggcatgcccgcgaagaacccagcaaaaatttccgcctacccccgcgacctcctggcccaggccc                                                                           >  2:713303‑M2/1‑36 (MQ=255)                                                                                                                            aTCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCa                           >  1:1091216/1‑150 (MQ=255)                                                                                                                             tcccaGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTg                                                                            <  2:970465/97‑1 (MQ=255)                                                                                                                             tCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTg                                                                            >  1:970465/1‑100 (MQ=255)                                                                                                                                   gTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGc                    >  2:17554/1‑150 (MQ=255)                                                                                                                                   gTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGc                    >  1:1086986/1‑150 (MQ=255)                                                                                                                                      tgtgGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTCCggg                 >  1:442632/1‑150 (MQ=255)                                                                                                                                        tgGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGgcg               >  2:804132/1‑150 (MQ=255)                                                                                                                                             tGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCt          >  1:104295/1‑150 (MQ=255)                                                                                                                                                    aTCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGATTTGCAGATTCCGGGGGTGCATCGAATGCTTCTGGCATGACCTGCGACTCCGCTCAGGGGCCCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTcccc   >  2:786816/1‑150 (MQ=255)                                                                                                                                                     tCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTCCCCt  >  2:747675/1‑150 (MQ=255)                                                                                                                                                     |                                                                                                                                                      CGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTA‑CATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTCCCCT  >  NC_002947/3947866‑3948162

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.