New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4978953 =	38 (1.640)	3 (0.130)	3/246	NT	8.6%	coding (514/786 nt)	flgG	flagellar basal‑body rod protein FlgG
	?	NC_002947	4978998 =	26 (1.140)					coding (469/786 nt)	flgG	flagellar basal‑body rod protein FlgG

TTCTCCAGCGTCTGCTGCAAGGTGGTGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCGGAGTTCA  >  NC_002947/4978805‑4979102                                                                                                                                                     |                                                                                                                                                      ttCTCCAGCGTCTGCTGCAAGGTGGTGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTg                                                                                                                                                      <  2:512994/150‑1 (MQ=255)      cAGCGTCTGCTGCAAGGTGGTGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGAt                                                                                                                                                 >  2:124298/1‑150 (MQ=255)      cAGAGTATGATGCAAGGTCGGGCCAAAACCGCTCAGGCCTTGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGAt                                                                                                                                                 >  2:380545/1‑150 (MQ=255)        gCGTCTGCTGCAAGGTGGTGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCa                                                                                                                                               >  1:301394/1‑150 (MQ=255)         cGTCTGCTGCAAGGTGGTGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCAc                                                                                                                                              <  1:527111/150‑1 (MQ=255)           tCTGCTGCAAGGTGGTGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCt                                                                                                                                            <  1:612343/150‑1 (MQ=255)               ctgcAAGGTGGTGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGATGCCGATCACCTGTGc                                                                                                                                        >  1:338997/1‑150 (MQ=255)                tgcAAGGTGGTGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCtgtg                                                                                                                                         >  2:37429/1‑148 (MQ=255)                tgcAAGGTGGTGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCtgtg                                                                                                                                         <  1:37429/148‑1 (MQ=255)                     ggtggtGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGATGCCGATCACCTGTGCAGCCgg                                                                                                                                  <  2:338997/150‑1 (MQ=255)                          tgCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGACACTGTCGGCGGTCTCGAGGAACCGGTTGTCGCCGAACGCCTGCAGGCCAGCCGGGTTAATGAATTCGGCGGTCTGGATGTTGCCGATCACGGGTGCAGCCGGGTTGc                                                                                                                             >  2:31850/1‑150 (MQ=255)                             cAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCcgg                                                                                                                          >  2:207545/1‑150 (MQ=255)                                aaCCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACTTGTGCAGCCGGGTTGCaggcgg                                                                                                                       >  2:191863/1‑150 (MQ=255)                                aaCCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCcggcgg                                                                                                                       <  1:124298/150‑1 (MQ=255)                                     ttCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGgtggtg                                                                                                                  >  2:9556/1‑150 (MQ=255)                                     ttCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGgtggtg                                                                                                                  >  2:4906/1‑150 (MQ=255)                                       cAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGTGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCAGGGTTGATCGAGTTGTCCGTCTCGTTCTCTCCTATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGAt                                                                                                                <  2:329774/150‑1 (MQ=255)                                            tgaactccgacggccagatcgtcactgacaacggctacgccctggagcctgccattgtcgtgcctaacgacgcgcagaccttcaccgttggccaggacggcaccgTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGaca                                                                                                           >  1:187135‑M1/106‑150 (MQ=255)                                                 tccgacggccagatcgtcactgacaacggctacgccctggagcctgccattgtcgtgcctaacgacgcgcagaccttcaccgttggccaggacggcaccgTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTg                                                                                                      <  1:306465‑M1/50‑1 (MQ=255)                                                 gTGCCGACCTGAGTCGCGCCACTGGCGGCTGTCTAGAGGAACAGGTTGTCGCCTATCGCCTGCAGGCCGGCCGGGTTGATGAGGTCGGCAGTCTTGATGTGGCCGATCTCCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTg                                                                                                      <  1:77659/150‑1 (MQ=255)                                                          cagatcgtcactgacaacggctacgccctggagcctgccattgtcgtgcctaacgacgcgcagaccttcaccgttggccaggacggcaccgTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTgg                                                                                             >  2:306465‑M1/92‑150 (MQ=255)                                                                gcgcCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACg                                                                                       <  1:380545/150‑1 (MQ=255)                                                                   ccACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTg                                                                                    <  2:301394/150‑1 (MQ=255)                                                                    cACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGa                                                                                   >  2:564459/1‑150 (MQ=255)                                                                     aCTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGaa                                                                                  <  1:4906/150‑1 (MQ=255)                                                                      cTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAg                                                                                 <  1:329189/150‑1 (MQ=255)                                                                       tGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGtt                                                                                                                                                       <  1:70339/79‑1 (MQ=255)                                                                       tGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGtt                                                                                                                                                       >  2:70339/1‑79 (MQ=255)                                                                                     aGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGc                                                                                                                                                     <  1:208980/67‑1 (MQ=255)                                                                                     aGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGc                                                                                                                                                     >  2:208980/1‑67 (MQ=255)                                                                                                   gCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTg                                                                                                      <  1:191309/100‑1 (MQ=255)                                                                                                   gCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTg                                                                                                      >  2:191309/1‑100 (MQ=255)                                                                                                            cTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAg                                           <  1:280079/150‑1 (MQ=255)                                                                                                                       ccggGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGt                                >  2:295035/1‑150 (MQ=255)                                                                                                                            ttGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGTCGTCCTTGCCAACAGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCa                           <  2:121012/150‑1 (MQ=255)                                                                                                                            ttGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTgg                                                                                             >  2:13038/1‑84 (MQ=255)                                                                                                                            ttGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTgg                                                                                             <  1:13038/84‑1 (MQ=255)                                                                                                                            ttGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCa                           <  1:564459/150‑1 (MQ=255)                                                                                                                                tgaAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATgg                                                     >  2:111989/1‑120 (MQ=255)                                                                                                                                tgaAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATgg                                                     <  1:111989/120‑1 (MQ=255)                                                                                                                                    gTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAg                                    >  2:407563/1‑133 (MQ=255)                                                                                                                                    gTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAg                                    <  1:407563/133‑1 (MQ=255)                                                                                                                                       ggcggTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAAGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTg                <  1:100786/150‑1 (MQ=255)                                                                                                                                           gTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCg            >  2:487207/1‑150 (MQ=255)                                                                                                                                              tGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTc                                                                                                 <  2:360886/62‑1 (MQ=255)                                                                                                                                              tGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTc                                                                                                 >  1:360886/1‑62 (MQ=255)                                                                                                                                                    ttGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCGGAGTTc   <  2:524592/150‑1 (MQ=255)                                                                                                                                                     TGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCGGAGTTCa  >  1:487207‑M1/1‑150 (MQ=255)                                                                                                                                                     |                                                                                                                                                      TTCTCCAGCGTCTGCTGCAAGGTGGTGCCAAAACCGTTCAGGCCTGGGGTGCCGACCTGAGGCGCGCCACTGGCGGCGGTCTCGAGGAACAGGTTGTCGCCGATCGCCTGCAGGCCGGCCGGGTTGATGAAGTCGGCGGTCTGGATGTTGCCGATCACCTGTGCAGCCGGGTTGCCGGCGGTGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCGGAGTTCA  >  NC_002947/4978805‑4979102

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.