New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4962552 =	31 (1.150)	6 (0.250)	5/264	2.4	16.9%	intergenic (‑41/+122)	fliH/fliG	flagellar assembly protein FliH/flagellar motor switch protein
	?	NC_002947	4962642 =	31 (1.280)					intergenic (‑131/+32)	fliH/fliG	flagellar assembly protein FliH/flagellar motor switch protein
Rejected: Frequency below/above cutoff threshold.

CCGGTTCGGGCTCCGGTTCCGGGTCGAAGCTTGGCAGCGTCCACACATCCACGCCCTCGAGGTCGCGGGCACGGATCAGGTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGC  >  NC_002947/4962403‑4962699                                                                                                                                                      |                                                                                                                                                    ccGGTTCGGGCTCCGGTTCCGGGTCGAAGCTTGGCAGCGTCCACACATCCACGCCCTCGAGGTCGCGGGCACGGATCAGGTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCt                                                                                                                                                     >  1:557732/1‑150 (MQ=255)  cggtacgggtcagcgacgtggaaaccgcgcagaaagaaatcctcaccattgcccggcgcatggccgaggccggcgagatcgtgctcggcggcaagggcgccgaggaaatgatctaaggtattcgcgatcccatagccgacgccgcctttt                                                                                                                                                    >  1:70185‑M1/149‑150 (MQ=255)    gTTCGGGCTCCGGTTCCGGGTCGAAGCTTGGCAGCGTCCACACATCCACGCCCTCGAGGTCGCGGGCACGGATCAGGTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGt                                                                                                                                                  <  2:540060/150‑1 (MQ=255)          gtcagcgacgtggaaaccgcgcagaaagaaatcctcaccattgcccggcgcatggccgaggccggcgagatcgtgctcggcggcaagggcgccgaggaaatgatctaaggtattcgcgatcccatagccgacgccgccttTTGTAGGAGc                                                                                                                                            >  1:425752‑M1/141‑150 (MQ=255)                 ttCCGGGTCGAAGCTTGGCAGCGTCCACACATCCACGCCCTCGAGGTCGCGGGCACGGATCAGGTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCa                                                                                                                                     >  2:513842/1‑150 (MQ=255)                                   cAGCGTCCACACATCCACGCCCTCGAGGTCGCGGGCACGGATCAGGTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCa                                                                                                                   <  1:222691/150‑1 (MQ=255)                                       gTCCACACATCCACGCCCTCGAGGTCGCGGGCACGGATCAGGTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGa                                                                                                               <  1:243017/150‑1 (MQ=255)                                                       ccTCGAGGTCGCGGGCACGGATCAGGTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCAGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAg                                                                                               >  1:9068/1‑150 (MQ=255)                                                           gcatggccgaggccggcgagatcgtgctcggcggcaagggcgccgaggaaatgatctaaggtattcgcgatcccatagccgacgccgccttTTGTAGGAGCGGGTTTACCCGCGAAGGCGTCGGTAGCGACAACCTCGATTGcc                                                                                                 >  2:516964‑M1/92‑144 (MQ=255)                                                           gcatggccgaggccggcgagatcgtgctcggcggcaagggcgccgaggaaatgatctaaggtattcgcgatcccatagccgacgccgccttTTGTAGGAGCGGGTTTACCCGCGAAGGCGTCGGTAGCGACAACCTCGATTGcc                                                                                                 <  1:516964‑M1/53‑1 (MQ=255)                                                                        cggcgagatcgtgctcggcggcaagggcgccgaggaaatgatctaaggtattcgcgatcccatagccgacgccgccttTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCgg                                                                              >  2:185359‑M1/79‑150 (MQ=255)                                                                        cggcgagatcgtgctcggcggcaagggcgccgaggaaatgatctaaggtattcgcgatcccagagccgacgccgccttTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCgg                                                                              >  2:539733‑M1/79‑150 (MQ=255)                                                                         ggcgagatcgtgctcggcggcaagggcgccgaggaaatgatctaaggtattcgcgatcccatagccgacgccgccttTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTc                                                                                  <  2:219839‑M1/68‑1 (MQ=255)                                                                         ggcgagatcgtgctcggcggcaagggcgccgaggaaatgatctaaggtattcgcgatcccatagccgacgccgccttTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTc                                                                                  >  1:219839‑M1/78‑145 (MQ=255)                                                                          gATCAGGTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGt                                                                            >  2:451402/1‑150 (MQ=255)                                                                              aGGTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAAc                                                                        <  2:97457/150‑1 (MQ=255)                                                                                gTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAAacc                                                                      >  1:264257/1‑150 (MQ=255)                                                                                     tGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTcc                                                                 >  2:335837/1‑150 (MQ=255)                                                                                     tGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTcc                                                                 >  2:335830/1‑150 (MQ=255)                                                                                            gtgtTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGTCAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTATACCCGCTCCTACataa                                                          <  2:421890/150‑1 (MQ=255)                                                                                                  tttGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGTTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGc                                                                    <  1:447706/134‑1 (MQ=255)                                                                                                  tttGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGTTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGc                                                                    >  2:447706/1‑134 (MQ=255)                                                                                                  tttGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAggcggc                                                    <  1:431115/150‑1 (MQ=255)                                                                                                     ggtggGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTAACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCGTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTc                                                 >  1:323335/1‑150 (MQ=255)                                                                                                       tggGCATGCTCTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCgg                                               <  1:380897/150‑1 (MQ=255)                                                                                                         ggCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCATCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCt                                             >  1:414962/1‑150 (MQ=255)                                                                                                           cATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTAt                                           <  2:557732/150‑1 (MQ=255)                                                                                                                   cATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATcgc                                   <  2:349440/150‑1 (MQ=255)                                                                                                                      gTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGaa                                <  2:233685/150‑1 (MQ=255)                                                                                                                           cAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCt                           <  1:523645/150‑1 (MQ=255)                                                                                                                            aaaCCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCtt                          >  2:210059/1‑150 (MQ=255)                                                                                                                             aaCCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTa                         >  2:331522/1‑150 (MQ=255)                                                                                                                                 aTGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATc                     <  2:334089/150‑1 (MQ=255)                                                                                                                                 aTGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATc                     >  1:605623/1‑150 (MQ=255)                                                                                                                                 aTGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATc                     >  1:605618/1‑150 (MQ=255)                                                                                                                                  tGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCNAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGCCGCCGTCGCGGGTAAACCCGCTCCTACACAAGGCGGCGTCGGCTCTGGGCTCGCGAATACCTTAGATCa                    >  1:94345/1‑150 (MQ=255)                                                                                                                                              acGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGgcgc        >  1:558763/1‑150 (MQ=255)                                                                                                                                                    ccTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTgc  >  1:336524/1‑150 (MQ=255)                                                                                                                                                    ccTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCGATGGGCTCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTgc  >  1:336532/1‑150 (MQ=255)                                                                                                                                                      |                                                                                                                                                    CCGGTTCGGGCTCCGGTTCCGGGTCGAAGCTTGGCAGCGTCCACACATCCACGCCCTCGAGGTCGCGGGCACGGATCAGGTCGCTGGGGTGGTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGC  >  NC_002947/4962403‑4962699

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ 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.