New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3798186	11 (0.140)	4 (0.050)	4/496	NT	27.8%	coding (1240/1260 nt)	waaL	O‑antigen ligase
	?	NC_000913	= 3798668	10 (0.130)					coding (644/1074 nt)	waaU	lipopolysaccharide core biosynthesis

GAGGGGCATTGGAGTTTTCTAACGTACATCTACATAATGAGATAATTGAAGCAGGGTCACTGAAAGGTCTGATGGGAATTTTTTCCACACTTTTCCTCTATTTTTCACTATTTTATATAGCATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTGAATTAGGGTAAAATGCAAGCGTTGGTTTATGATAAGCCGCAGCGATATGAACAAGAGCTGTATCAACAGAAATGACAAAATCA  >  NC_000913/3797926‑3798472                                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                                                               gagGGGCATTGGAGTTTTCTAACGTACATCTACATAATGAGATAATTGAAGCAGGGTCACTGAAAGGTCTGATGGGAATTTTTTCCACACTTTTCCTCTATTTTTCACTATTTTATATAGCATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAAc                                                                                                                                                                                                                                                                    >  1:196092/1‑289 (MQ=255)   ggggCATTGGAGTTTTCTAACGTACATCTACATAATGAGATAATTGAAGCAGGGTCACTGAAAGGTCTGATGGGAATTTTTTCCACACTTTTCCTCTATTTTTCACTATTTTATATAGCATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACa                                                                                                                                                                                                                                                                   <  1:316813/288‑1 (MQ=255)                                        agaTAATTGAAGCAGGGTCACTGAAAGGTCTGATGGGAATTTTTTCCACACTTTTCCTCTATTTTTCACTATTTTATATAGCATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCcattaggtgcaaaaaaaatatgccgtcttacgtttgagcaaataaaagttatatatcaagaagtgaa                                                                                                                                                                                                                             >  1:605428‑M1/1‑222 (MQ=255)                                                                                  tttCCACACTTTTCCTCTATTTTTCACTATTTTATATAGCATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCg                                                                                                                                                                                   <  2:196092/289‑1 (MQ=255)                                                                                                 tctATTTTTCACTATTTTATATAGCATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCcattaggtgcaaaaaaaatatgccgtcttacgtttgagcaaataaaagttatatatcaagaagtgaaaacacactttgaaaattatcggattatatttaccgggttaccgcaagatttattgac                                                                                                                                                                    <  2:605428‑M1/289‑125 (MQ=255)                                                                                                                         cATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTaa                                                                                                                                                                                                >  2:183281/1‑237 (MQ=255)                                                                                                                         cATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTaa                                                                                                                                                                                                <  1:183281/237‑1 (MQ=255)                                                                                                                         cATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGtata                                                                                                                                            >  2:146474/1‑289 (MQ=255)                                                                                                                           tataAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCtat                                                                                                                                                                                                                              >  1:470271/1‑205 (MQ=255)                                                                                                                           tataAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCtat                                                                                                                                                                                                                              <  2:470271/205‑1 (MQ=255)                                                                                                                              aaaaaaCGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCcattaggtgcaaaaaaaatatgccgtcttacgtttgagcaaataaaagttatatatcaagaagtgaaaacacactttgaaaattatcggattatatttaccgggttaccgcaagatttattgacaataccaatacttgaaatcgaaacacta                                                                                                                                        >  2:31284‑M1/1‑136 (MQ=255)                                                                                                                                                       tatTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCcattaggtgcaaaaaaaatatgccgtcttacgtttgagcaaataaaagttatatatcaagaagtgaaaacacactttgaaaattatcggattatatttaccgggttaccgcaagatttattgacaataccaatacttgaaatcgaaacactaccatttgatgagtttatttataccg                                                                                                               <  1:31284‑M1/288‑178 (MQ=255)                                                                                                                                                                  ggCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGt                                                                                                                                                                                                                                                                                              >  1:276921/1‑102 (MQ=255)                                                                                                                                                                  ggCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGt                                                                                                                                                                                                                                                                                              <  2:276921/102‑1 (MQ=255)                                                                                                                                                                  ggCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGta                                                                                                                                              <  1:46094/246‑1 (MQ=255)                                                                                                                                                                  ggCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGta                                                                                                                                              >  2:46094/1‑246 (MQ=255)                                                                                                                                                                                                                                               ccTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTGAATTAGGGTAAAATGCAAGCGTTGGTTTATGATAAGCCGCAGCGATATGAACAAGAGCTGt                        <  1:146474/287‑1 (MQ=255)                                                                                                                                                                                                                                                                    tCcattaggtgcaaaaaaaatatgccgtcttacgtttgagcaaataaaagttatatatcaagaagtgaaaacacactttgaaaattatcggattatatttaccgggttaccgcaagatttattgacaataccaatacttgaaatcgaaacactaccatttgatgagtttatttataccgttgcgttgaccaagtatagtgattttgtcatttctgttgatacagctcttgttcatatcgctgcggcttatcataaaccaacgcttgcattttaccctaattcacgtac  >  1:350695‑M1/1‑2 (MQ=255)                                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                                                               GAGGGGCATTGGAGTTTTCTAACGTACATCTACATAATGAGATAATTGAAGCAGGGTCACTGAAAGGTCTGATGGGAATTTTTTCCACACTTTTCCTCTATTTTTCACTATTTTATATAGCATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTGAATTAGGGTAAAATGCAAGCGTTGGTTTATGATAAGCCGCAGCGATATGAACAAGAGCTGTATCAACAGAAATGACAAAATCA  >  NC_000913/3797926‑3798472

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ 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.