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.

GTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATGGTGAGGATTTCTTTCTGCGCGGTTTCCACGTCGCTGACCCGTACCG  >  NC_002947/4962494‑4962789                                                                                                                                                     |                                                                                                                                                    gtgtTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGTCAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTATACCCGCTCCTACataa                                                                                                                                                    <  2:421890/150‑1 (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                                                                                                               >  1:605623/1‑150 (MQ=255)                                      aTGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATc                                                                                                               >  1:605618/1‑150 (MQ=255)                                      aTGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATc                                                                                                               <  2:334089/150‑1 (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)                                                               AGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGa                                                                                      >  2:377511‑M1/1‑150 (MQ=255)                                                                 GAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTACTCGGCGCCCTTGCCGCCGAGc                                                                                    <  1:245912‑M1/150‑1 (MQ=255)                                                                            cccGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGcc                                                                         <  1:361361/150‑1 (MQ=255)                                                                             ccgcgaaggcgtcggtcctggcaatcgaggttgtcgctgccgacgcattcgcgggtgaacccgctcctacaaAAGGCGGCGTCGGCTCTGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCg                                                                        >  2:539733‑M2/73‑150 (MQ=255)                                                                             ccgcgaaggcgtcggtcctggcaatcgaggttgtcgctgccgacgcattcgcgggtgaacccgctcctacaaAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCg                                                                        >  2:185359‑M2/73‑150 (MQ=255)                                                                             ccGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCg                                                                        >  1:4735/1‑150 (MQ=255)                                                                                cgAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGcc                                                                     <  2:605618/150‑1 (MQ=255)                                                                                cgAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGcc                                                                     <  2:605623/150‑1 (MQ=255)                                                                                 gaaggcgtcggtcctggcaatcgaggttgtcgctgccgacgcattcgcgggtgaacccgctcctacaaAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGcc                                                                         <  2:219839‑M2/77‑1 (MQ=255)                                                                                 gaaggcgtcggtcctggcaatcgaggttgtcgctgccgacgcattcgcgggtgaacccgctcctacaaAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGcc                                                                         >  1:219839‑M2/69‑145 (MQ=255)                                                                                                ggcaatcgaggttgtcgctaccgacgccttcgcgggtaaacccgctcctacaaAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATgc                                                           <  1:516964‑M2/91‑1 (MQ=255)                                                                                                ggcaatcgaggttgtcgctaccgacgccttcgcgggtaaacccgctcctacaaAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATgc                                                           >  2:516964‑M2/54‑144 (MQ=255)                                                                                                gACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCggg                                                     >  2:283746/1‑150 (MQ=255)                                                                                                gACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCggg                                                     >  1:371359/1‑150 (MQ=255)                                                                                                      cTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATgg                                               >  1:168902/1‑150 (MQ=255)                                                                                                         gATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATGGTGa                                            <  1:472644/150‑1 (MQ=255)                                                                                                         caTTGCCAGGACCGCCGCCTTCGCGGGAAAACCCGCTCCAACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATGGTGa                                            <  1:165007/149‑1 (MQ=255)                                                                                                                             tCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATGGTGAGGATTTCTTTCTGCGCGGtt                        <  1:335837/150‑1 (MQ=255)                                                                                                                             tCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATGGTGAGGATTTCTTTCTGCGCGGtt                        <  1:335830/150‑1 (MQ=255)                                                                                                                               gcgGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATGGTGAGGATTTCTTTCTGCGCGGTTTc                      <  1:451402/150‑1 (MQ=255)                                                                                                                                     aaaCCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATGGTGAGGATTTCTTTCTGCGCGGTTTCCACGTc                >  2:566590/1‑150 (MQ=255)                                                                                                                                           gctcctacaaAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATGGTGAGGATTTCTTTCTGCGCGGTTTCCACGTCGCTGAc          >  1:425752‑M2/11‑150 (MQ=255)                                                                                                                                                   aaAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATGGTGAGGATTTCTTTCTGCGCGGTTTCCACGTCGCTGACCCGTACCg  >  1:70185‑M2/3‑150 (MQ=255)                                                                                                                                                     |                                                                                                                                                    GTGTTCTTTGGTGGGCATGCTGTCATGTTCTCAAACCATGTTCGGCCGACACGGTCCCTTGTAGGAGCGGGTTCACCCGCGAATGCGTCGGCAGCGACAACCTCGATTGCCAGGACCGACGCCTTCGCGGGTAAACCCGCTCCTACAAAAGGCGGCGTCGGCTATGGGATCGCGAATACCTTAGATCATTTCCTCGGCGCCCTTGCCGCCGAGCACGATCTCGCCGGCCTCGGCCATGCGCCGGGCAATGGTGAGGATTTCTTTCTGCGCGGTTTCCACGTCGCTGACCCGTACCG  >  NC_002947/4962494‑4962789

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.