New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3947984	45 (0.620)	10 (0.180)	9/192	NT	21.8%	coding (109/1797 nt)	PP_3483	type II secretion system protein
	?	NC_002947	= 3948013	37 (0.660)					coding (80/1797 nt)	PP_3483	type II secretion system protein

TGCAGGGTCAGGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/3947812‑3947984 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcttcgcgggcatgcccgctcccacaggATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCTCGACTGCCTGGAACGC  <  NC_002947/3948013‑3947865                                                                                                                                                                                                                                                                                                                                    TGCAGGGTCAGGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTGGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTTGGCCAGGAGGTCGCGGGGGTGGGCGGAAATTTTTGCTGGGTTCTTC                                                                                                                                                                              >  1:3311/1‑150  GCAGGGTCAGGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGCGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCG                                                                                                                                                                             >  1:1240571/1‑150  GCAGGGTCAGGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCG                                                                                                                                                                             >  2:1469263/1‑150        TCAGGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCA                                                                                                                                                                       >  2:675677/1‑150           GGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGC                                                                                                                                                                    <  1:967052/150‑1            GCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCC                                                                                                                                                                   >  2:1289546/1‑150             CCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCC                                                                                                                                                                  >  2:1369535/1‑150                 GGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCCTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTC                                                                                                                                                              <  1:101272/150‑1                  GCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGTAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCC                                                                                                                                                             <  1:1509674/150‑1                  GCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGACCGCTCC                                                                                                                                                             >  1:211932/1‑150                      CGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACA                                                                                                                                                         >  1:804129/1‑150                       GGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCATGCTAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAG                                                                                                                                                        <  1:418513/150‑1                       GGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAG                                                                                                                                                        <  2:234322/150‑1                       GGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCGTGCAGAGGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAG                                                                                                                                                        <  2:652021/150‑1                            AAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCgaagaa                                                                                                                                                          >  2:1932371/1‑137                            AAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCgaagaa                                                                                                                                                          <  1:1932371/143‑7                               GTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGTGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCA                                                                                                                                                           >  2:1799175/1‑139                               GTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGTGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCA                                                                                                                                                           <  1:1799175/139‑1                                                            CAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCAGGCCCGCTCCCACAGGATGTAGGCAGCCCACAGACCTGTGATGTACCTGTGG                                                                                                                   >  2:1641607/1‑150                                                                       GCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGG                                                                                                                                                       <  1:1579945/103‑1                                                                       GCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGG                                                                                                                                                       >  2:1579945/1‑103                                                                                  gCAGTCGCTTGCAGACGGGCCGGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCGGGGTTCTTCGCGGGCATGCCCGCTCCCACAGCATGGATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAA                                                                                             <  1:1641607/149‑1                                                                                          TTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGC                                                                                                           <  2:379183/128‑1                                                                                          TTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGC                                                                                                           >  1:379183/1‑128                                                                                          TTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGG                                                                                                            >  1:1248033/1‑127                                                                                          TTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGG                                                                                                            <  2:1248033/127‑1                                                                                                       TGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGA                                                                                                                 <  1:405039/109‑1                                                                                                       TGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGA                                                                                                                 >  2:405039/1‑109                                                                                                                                            CTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCG                                                                                                              <  2:349871/75‑1                                                                                                                                            CTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCG                                                                                                              >  1:349871/1‑75                                                                                                                                                 gtcgTCGCCGGCATGCCCGCCCCCACAGGATGTACGCAGCCCACAGACCTGTGATGTACCTGTGGGCGCGGGCATGCCCGCGAAGAACCCAGCAGAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGA                              <  2:65140/146‑1                                                                                                                                                  TCTTCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCACGAGAAGAACCCAGCAAAAATTTCCGCCCACCCACGCGGCCTGCTGGCCCACGCCCGTCTGAAAGCAACTGAC                             >  1:916121/1‑150                                                                                                                                                    TTCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGA                           >  2:1041353/1‑150                                                                                                                                                    TTCGCGGGCATGCCCGCGCCCACAGGATGTATGCATCCCACAGACCTCTGATCTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCGCGCGGCCTCCTGGCCCAGGCCCGTCTGCAAGCCACTagccg                           >  1:799326/1‑145                                                                                                                                                     TCGCGGGCATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAG                          >  2:1742891/1‑150                                                                                                                                                             ATGCCCGCTCCCACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAACTTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCT                  >  2:637103/1‑150                                                                                                                                                                     TCCCACAGAATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCTCGACTGCC          <  2:799326/150‑1                                                                                                                                                                       CCACAGGATGTATGCAGCATACAGAACTGTGATGTATCTGTGTGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCTCGACTGCCTG        <  2:184627/150‑1                                                                                                                                                                        CACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGAAGACCGCCTGCTCGACTGCCTGG       >  2:864347/1‑150                                                                                                                                                                        CACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGG                                                 >  2:1440233/1‑108                                                                                                                                                                        CACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGG                                                 <  1:1440233/108‑1                                                                                                                                                                         ACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCTCGACTGCCTGGA      >  2:1744846/1‑150                                                                                                                                                                         ACAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCTCGACTGCCTGGA      >  2:1456652/1‑150                                                                                                                                                                          CAGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCTCGACTGCCTGGAA     <  1:1041353/150‑1                                                                                                                                                                           AGGATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCTCGACTGCCTGGAAC    <  1:1388061/150‑1                                                                                                                                                                             GATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCTCGACTGCCTGGAACGC  <  2:1115418/150‑1                                                                                                                                                                             GATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCTCGACTGCCTGGAACGC  >  1:602258/1‑150                                                                                                                                                                                                                                                                                                                                    TGCAGGGTCAGGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAGCAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/3947812‑3947984 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcttcgcgggcatgcccgctcccacaggATGTATGCAGCCCACAGACCTGTGATGTACCTGTGGGAGCGGGCATGCCCGCGAAGAACCCAGCAAAAATTTCCGCCTACCCCCGCGACCTCCTGGCCCAGGCCCGTCTGCAAGCCACTGACGAGCGCCTGCTCGACTGCCTGGAACGC  <  NC_002947/3948013‑3947865

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.