New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4979899	33 (0.600)	4 (0.080)	4/246	NT	10.3%	coding (311/741 nt)	flgF	flagellar basal‑body rod protein FlgF
	?	NC_002947	= 4979934	38 (0.710)					coding (276/741 nt)	flgF	flagellar basal‑body rod protein FlgF

CTTCACCCATGGAGCGGATGCTGATGGTGCCGTCGGCACCCACTTCCACTTTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGACCAACGGGCCTTCACTGAAGTCGGTGGCCGGGCGCTCGGTCAT  >  NC_002947/4979756‑4980038                                                                                                                                                |                                                                                                                                            cTTCACCCATGGAGCGGATGCTGATGGTGCCGTCGTCACCCACTTCCACTTTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCg                                                                                                                                        >  1:53184/1‑149 (MQ=255)    cACCCATGGAGCGGATGCTGATGGTGCCGTCGGCACCCACTTCCACTTTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCg                                                                                                                                        <  3:24154/146‑1 (MQ=255)    cACCCATGGAGCGGATGCTGATGGTGCCGTCGGCACCCACTTCCACTTTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGt                                                                                                                                      <  2:193328/148‑1 (MQ=255)       ccATGGAGCGGATGCTGATGGTGCCGTCGGCACCCACTTCCACTTTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACg                                                                                                                                   >  2:329788/1‑148 (MQ=255)                ggATGCTGATGGTGCCGTCGGCACCCACTTCCACTTTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCGCGCAGCACAGCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCt                                                                                                                         >  8:303851/1‑149 (MQ=255)                                        ccacttccacttTCTGCTCCGGCGGGATGGCGCTCGGGCCACCGTTGCGGATCACCGGCATGCCATTGCCGGCACGCAGCACCCCGAGGGCCTCGATGTTCAGGCTACCGGTACGCACTTAGGCTTCGCTGCCGTCCGGCGCCTGCACg                                                                                                 >  4:197891/1‑149 (MQ=255)                                            ttccacttTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCgg                                                                                                                                       >  1:268207/1‑107 (MQ=255)                                            ttccacttTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCgg                                                                                                                                       <  2:268207/107‑1 (MQ=255)                                              ccacttTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGa                                                                                             <  7:323762/147‑1 (MQ=255)                                              ccacttTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGAt                                                                                            >  6:5853/1‑148 (MQ=255)                                               cacttTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATaa                                                                                          <  1:329788/149‑1 (MQ=255)                                                acttTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCgccggacggcagcgaagcctatgtgcgtaccggtagcctgaacatc                                                                                               >  4:335400‑M1/1‑97 (MQ=255)                                                acttTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCgccggacggcagcgaagcctatgtgcgtaccggtagcctgaacatc                                                                                               <  3:335400‑M1/143‑47 (MQ=255)                                                           cggcggGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGTCgccggacggcagcgaagcctatgtgcgtaccggtagcctgaacatcga                                                                                             <  1:85281‑M1/134‑49 (MQ=255)                                                           cggcggGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCgccggacggcagcgaagcctatgtgcgtaccggtagcctgaacatcga                                                                                             >  2:85281‑M1/1‑86 (MQ=255)                                                            ggcggGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGt                                                                             >  8:216874/1‑149 (MQ=255)                                                                             gCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCAcc                                                                         >  8:77096/1‑136 (MQ=255)                                                                             gCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCAcc                                                                         <  7:77096/136‑1 (MQ=255)                                                                             gCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGt                                                            >  3:348415/1‑149 (MQ=255)                                                                                 ccGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTcgcg                                                        <  4:348415/149‑1 (MQ=255)                                                                                   gTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGc                                                      <  7:216874/149‑1 (MQ=255)                                                                                             aCCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCa                                                    <  3:221842/141‑1 (MQ=255)                                                                                             aCCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCa                                                    >  4:221842/1‑141 (MQ=255)                                                                                             aCCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGa                                             <  2:53184/148‑1 (MQ=255)                                                                                              ccGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTg                                                                                                                   >  6:83794/1‑77 (MQ=255)                                                                                              ccGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTg                                                                                                                   <  5:83794/77‑1 (MQ=255)                                                                                                 gCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGACCAAc                                        >  7:179827/1‑149 (MQ=255)                                                                                                   aTGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGACCAACgg                                      <  8:179827/149‑1 (MQ=255)                                                                                                        aTTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGACCAACGGGCCtt                                 <  5:5853/149‑1 (MQ=255)                                                                                                         ttGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGcc                                                                                >  1:307727/1‑101 (MQ=255)                                                                                                         ttGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGcc                                                                                <  2:307727/101‑1 (MQ=255)                                                                                                                          acCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGACCAACGGGCCTTCACTGAAGTCGGTGGCCg               >  5:265526/1‑149 (MQ=255)                                                                                                                            cGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGACCAACGGGCCTTCACTGAAGTCGGTGGCCggg             >  5:337956/1‑149 (MQ=255)                                                                                                                                ggCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTcgc                                                         >  7:290931/1‑101 (MQ=255)                                                                                                                                ggCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTcgc                                                         <  8:290931/101‑1 (MQ=255)                                                                                                                                   aTCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGACCAACGGGCCTTCACTGAAGTCGGTGGCCGGGCGCTCgg      >  7:22615/1‑149 (MQ=255)                                                                                                                                    tCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCgcctgaacatcgatgccctcggtgtgctgcgtgccggcaatggcatgccggtgatcggcaacggtggcccgatcgccatcccgccg                    >  2:85281‑M2/1‑48 (MQ=255)                                                                                                                                    tCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCgactgaacatcgatgccctcggtgtgctgcgtgccggcaatggcatgccggtgatcggcaacggtggcccgatcgccatcccgccg                    <  1:85281‑M2/134‑87 (MQ=255)                                                                                                                                     ccaTGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCAATTGCCGGTCACCGCCAGGTCAAGGTCGCGGCCAGTTTCGAGCAACGGGCCTTCACTGAAGTCGGTGGACGGGAGATCGGt     >  4:81755/3‑148 (MQ=255)                                                                                                                                      gATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCgcctgaacatcgatgccctcggtgtgctgcgtgccggcaatggcatgccggtgatcggcaacggtggcccgatcgccatcccgccggagcagaaagt         >  4:335400‑M2/1‑46 (MQ=255)                                                                                                                                      gATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCgcctgaacatcgatgccctcggtgtgctgcgtgccggcaatggcatgccggtgatcggcaacggtggcccgatcgccatcccgccggagcagaaagt         <  3:335400‑M2/143‑98 (MQ=255)                                                                                                                                       aTGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGACCAACGGGCCTTCACTGAAGTCGGTGGCCGGGCGCTCGGTCAt  >  5:35191/1‑149 (MQ=255)                                                                                                                                       aTGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGACCAACGGGCCTTCACTGAAGTCGGTGGCCGGGCGCTCGGTCAt  >  8:245549/1‑149 (MQ=255)                                                                                                                                                |                                                                                                                                            CTTCACCCATGGAGCGGATGCTGATGGTGCCGTCGGCACCCACTTCCACTTTCTGCTCCGGCGGGATGGCGATCGGGCCACCGTTGCCGATCACCGGCATGCCATTGCCGGCACGCAGCACACCGAGGGCATCGATGTTCAGGCTACCGGTACGCACATAGGCTTCGCTGCCGTCCGGCGCCTGCACGGCGATAAAGCCTTTGCCGGTCACCGCCACGTCAAGGTCGCGGCCAGTTTCGACCAACGGGCCTTCACTGAAGTCGGTGGCCGGGCGCTCGGTCAT  >  NC_002947/4979756‑4980038

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.