New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5816927	25 (0.220)	9 (0.090)	7/208	NT	29.8%	intergenic (+57/+72)	PP_5092/pilT	NLP/P60 protein/twitching motility protein
	?	NC_002947	= 5816954	21 (0.220)					intergenic (+84/+45)	PP_5092/pilT	NLP/P60 protein/twitching motility protein

GCAAGCGGGTGAGTATCGACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/5816761‑5816927 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgcccgctcccacaggtaTGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCACGTAGTGCT  <  NC_002947/5816954‑5816806                                                                                                                                                                                                                                                                                                                              GCAAGCGGGTGAGTATCGACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCAC                                                                                                                                                                        <  2:1538389/150‑1    AGCGGGTGAGTATCGACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCC                                                                                                                                                                     <  2:1969433/150‑1          TGAGTATCGACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGACCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCC                                                                                                                                                               >  1:1358458/1‑150            AGTATCGACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCGTGCCCGCgaagg                                                                                                                                                             <  2:1554552/150‑6               ATCGACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAG                                                                                                                                                          <  2:1169963/150‑1               ATCGACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAG                                                                                                                                                          <  1:927853/150‑1                  GACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTA                                                                                                                                                       >  2:1999208/1‑150                  GACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAG                                                                                                                                                          <  1:1239179/147‑1                  GACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAG                                                                                                                                                          >  2:1239179/1‑147                   ACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAa                                                                                                                                                      >  1:43359/1‑149                   ACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAT                                                                                                                                                      <  1:611745/150‑1                       CTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACA                                                                                                                                                           >  1:1878569/1‑141                       CTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACA                                                                                                                                                           <  2:1878569/141‑1                                   TTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTATGTGAGCTGCGCGCGAG                                                                                                                                      >  1:1352319/1‑150                                                    ACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGT                                                                                                                     <  2:1648961/150‑1                                                      GTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGG                                                                                                                   <  2:1352319/150‑1                                                         GTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGC                                                                                                                                                                      >  1:1281497/1‑96                                                         GTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGC                                                                                                                                                                      <  2:1281497/96‑1                                                              CAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCC                                                                                                                                                                     <  1:844023/92‑1                                                              CAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCC                                                                                                                                                                     >  2:844023/1‑92                                                                          GCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGG                                                                                                                   <  1:2302881/130‑1                                                                          GCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGG                                                                                                                   >  2:2302881/1‑130                                                                             GAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCGTGCCCGCga                                                                                                                                                                <  1:1559447/82‑3                                                                             GAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCGTGCCCGCga                                                                                                                                                                >  2:1559447/1‑80                                                                             GAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCGCGCCCGCTCCCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGG                                                                                                                   <  2:1473154/127‑1                                                                             GAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCGCGCCCGCTCCCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGG                                                                                                                   >  1:1473154/1‑127                                                                                                                           TATCCGGTACCGGCCCCTTCGCGGGCGCGCCCGCTCCCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGA                                                                                                                 <  1:684462/83‑1                                                                                                                           TATCCGGTACCGGCCCCTTCGCGGGCGCGCCCGCTCCCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGA                                                                                                                 >  2:684462/1‑83                                                                                                                                                          CGCTCCCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTT                                                          >  2:1713212/1‑107                                                                                                                                                          CGCTCCCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTT                                                          <  1:1713212/107‑1                                                                                                                                                               CCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTGCCGGATAGCGCCGATTAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCAC          >  2:871843/1‑150                                                                                                                                                               CCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCAC          >  2:1434813/1‑150                                                                                                                                                               CCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCAC          >  2:1132763/1‑150                                                                                                                                                               CCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCAC          >  2:1084174/1‑150                                                                                                                                                               CCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGC                                                                           <  1:260802/85‑1                                                                                                                                                               CCACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGC                                                                           >  2:260802/1‑85                                                                                                                                                               CCACAGGGATGGGATCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCAC          >  2:43359/1‑150                                                                                                                                                                CACAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCACG         >  2:436319/1‑150                                                                                                                                                                  CAGGTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCACGTA       <  1:1084174/150‑1                                                                                                                                                                     GTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCACGTAGTG    >  2:1749863/1‑150                                                                                                                                                                     GTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCACGTAGTG    >  2:2082050/1‑150                                                                                                                                                                     GTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCACGTAGTG    >  1:1936647/1‑150                                                                                                                                                                     GTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCC                                                                                          <  2:1790949/64‑1                                                                                                                                                                     GTATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCC                                                                                          >  1:1790949/1‑64                                                                                                                                                                       ATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCACGTAGTGCT  >  1:1937922/1‑150                                                                                                                                                                       ATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTT                                  <  2:1505151/118‑1                                                                                                                                                                       ATGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTT                                  >  1:1505151/1‑118                                                                                                                                                                                                                                                                                                                              GCAAGCGGGTGAGTATCGACACCTTGAGCAAGCCTTACTGGCAGAAGCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/5816761‑5816927 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgcccgctcccacaggtaTGTGAGCTGCGCGCGAGAGCGACGCGCTACCTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGTACCGGATAGCGCCGATCAGCTTAACGCTTGGCCAGACTCAGCTGCTGCTCTTTCGGCAGCACCCGCTTGGCCACCACGTAGTGCT  <  NC_002947/5816954‑5816806

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