New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 3801158	24 (1.390)	6 (0.370)	4/288	NT	21.9%	coding (301/1035 nt)	waaQ	lipopolysaccharide core biosynthesis protein
	?	CP009273	= 3801449	20 (1.220)					coding (10/1035 nt)	waaQ	lipopolysaccharide core biosynthesis protein

TACCAGCAGCGCCACCATCCACTGATCCGTAAGATTAATGACCAGGTCATAATTATTCGCACGCAGAGTTTTTATCAACGAAAGCACATTTTTAATTTTATCGAAAGTTCCCGCACCTTTATTGCTTATCCCATAGAGCGCATTAATTTCCGGGTTTTCAGACAAAATAGGGATGGTGTCCTGATAAAGCAGCATATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAGAAAAAAGCACGCTACCGCCCCAGGCTCAACAGCTACCTGAATACTGATAACGCACTTACTTTGACGTGCTAGTGTATCATTTCTTTCGCAGCAATCCGACCCGAATGATTTTTATACACAAAATATACTTTAATCATAAAAATCAAATAGATAAAAAATAGCATTTCGATAATGTCAGTACG  >  CP009273/3801183‑3801716                                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                                            tACCAGCAGCGCCACCATCCACTGATCCGTAAGATTAATGACCAGGTCATAATTATTCGCACGCAGAGTTTTTATCAACGAAAGCACATTTTTAATTTTATCGAAAGTTCCCGCACCTTTATTGCTTATCCCATAGAGCGCATTAATTTCCGGGTTTTCAGACAAAATAGGGATGGTGTCCTGATAAAGCAGCATATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGatatcgca                                                                                                                                                                                                                                                                     >  1:90653‑M2/1‑267 (MQ=255)                                                        ttCGCACGCAGAGTTTTTATCAACGAAAGCACATTTTTAATTTTATCGAAAGTTCCCGCACCTTTATTGCTTATCCCATAGAGCGCATTAATTTCCGGGTTTTCAGACAAAATAGGGATGGTGTCCTGATAAAGCAGCATATCGATTTTTGCATCAGGATAATACTGCTTGAGCGTACTGATGNCAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGAc                                                                                                                                                                                                                         >  1:256855/1‑264 (MQ=255)                                                                                                    aTCGAAAGTTCCCGCACCTTTATTGCTTATCCCATAGAGCGCATTAATTTCCGGGTTTTCAGACAAAATAGGGATGGTGTCCTGATAAAGCAGCATATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGatat                                                                                                                                                                                                                                                                         <  1:84960‑M2/172‑5 (MQ=255)                                                                                                        aaaGTTCCCGCACCTTTATTGCTTATCCCATAGAGCGCATTAATTTCCGGGTTTTCAGACAAAATAGGGATGGTGTCCTGATAAAGCAGCATATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGatatcgca                                                                                                                                                                                                                                                                     >  2:84958‑M2/1‑164 (MQ=255)                                                                                                        aaaGTTCCCGCACCTTTATTGCTTATCCCATAGAGCGCATTAATTTCCGGGTTTTCAGACAAAATAGGGATGGTGTCCTGATAAAGCAGCATATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGttaagttaag                                                                                                                                                                                           <  1:83740/246‑1 (MQ=255)                                                                                                                                           cgcATTAATTTCCGGGTTTTCAGACAAAATAGGGATGGTGTCCTGATAAAGCAGCATATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCAt                                                                                                                                                                                                                                                                    >  2:62868/1‑138 (MQ=255)                                                                                                                                               ttAATTTCCGGGTTTTCAGACAAAATAGGGATGGTGTCCTGATAAAGCAGCATATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCttt                                                                                                                                                                                                                                                                <  1:62870/138‑1 (MQ=255)                                                                                                                                                                                       gATAAAGCAGCATATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCg                                                                                                                                                                                                                                               >  1:279867/1‑115 (MQ=255)                                                                                                                                                                                           aaGCAGCATATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAAt                                                                                                                                                                                                                                           <  2:279856/115‑1 (MQ=255)                                                                                                                                                                                                 caTATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACt                                                                                                                                                                                                                               >  2:14033/1‑121 (MQ=255)                                                                                                                                                                                                 caTATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAg                                                                                                                                                                                        >  1:7898/1‑160 (MQ=255)                                                                                                                                                                                                     tCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCg                                                                                                                                                                                                                           <  1:14033/121‑1 (MQ=255)                                                                                                                                                                                                     tCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAGaaaa                                                                                                                                                                                    <  2:7898/160‑1 (MQ=255)                                                                                                                                                                                                            ttGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTATGTAATAACATAACCTCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAGTAAAAAGCACGCTACCGCCCCAGGCTCAACAGCTACCTGAATACTGAt                                                                                                                                        <  1:317370/197‑1 (MQ=255)                                                                                                                                                                                                                               cTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGatatcgcaactttatggtcatcggcagcatggtatttggaaaaaaagcttcacacacttagcgccaatac                                                                                                                                                                                                       <  2:319382‑M2/115‑71 (MQ=255)                                                                                                                                                                                                                               cTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGatatcgcaactttatggtcatcggcagcatggtatttggaaaaaaagcttcacacacttagcgccaatac                                                                                                                                                                                                       <  1:55859‑M2/115‑71 (MQ=255)                                                                                                                                                                                                                               cTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATg                                                                                                                                                                                                                                                             >  1:202781/1‑61 (MQ=255)                                                                                                                                                                                                                               cTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAGAAAAAAGCACGCTACCGCCCCAGGCTCaa                                                                                                                                                           >  1:60872/1‑159 (MQ=255)                                                                                                                                                                                                                                ttGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGatatcgcaactttatggtcatcggcagcatggtatttggaaaaaaagcttcacacacttagcgccaatacacggtacacatattgttgagcgtaatttatcggtccttgagccattagttattaccga                                                                                                                                             <  2:24341‑M2/172‑129 (MQ=255)                                                                                                                                                                                                                                   aGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGatatcgcaactttatggtcatcggcagcatggtatttggaaaaaaagcttcacacacttagcgccaatacacgg                                                                                                                                                                                                   >  2:55857‑M2/1‑41 (MQ=255)                                                                                                                                                                                                                                   aGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGatatcgcaactttatggtcatcggcagcatggtatttggaaaaaaagcttcacacacttagcgccaatacacgg                                                                                                                                                                                                   >  1:319393‑M2/1‑41 (MQ=255)                                                                                                                                                                                                                                   aGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCa                                                                                                                                                                                                                                                         <  2:202775/61‑1 (MQ=255)                                                                                                                                                                                                                                   aGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAGAAAAAAGCACGCTACCGCCCCAGGCTCAACAGc                                                                                                                                                       <  2:60870/159‑1 (MQ=255)                                                                                                                                                                                                                                    gCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGatatcgcaactttatggtcatcggcagcatggtatttggaaaaaaagcttcacacacttagcgccaatacacggtacacatattgttgagcgtaatttatcggtccttgagccattaggtattaccgatttc                                                                                                                                         >  1:24341‑M2/1‑40 (MQ=255)                                                                                                                                                                                                                                             tgaCAGGAGTAGTTAATAACATATCCCCATTGTATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTGCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAGAAAAAAGCAc                                                                                                                                                                              <  1:9341/126‑1 (MQ=255)                                                                                                                                                                                                                                                      tagtTAATAACATATCCCCATGATATCGCATCTTTATGAcc                                                                                                                                                                                                                                                          >  1:106154/1‑41 (MQ=255)                                                                                                                                                                                                                                                      tagtTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGt                                                                                                                                                                                                         >  1:186558/1‑90 (MQ=255)                                                                                                                                                                                                                                                          taataaCATATCCCCATGATATCGCATCTTTATGACCAGGa                                                                                                                                                                                                                                                      <  2:106152/41‑1 (MQ=255)                                                                                                                                                                                                                                                          taataaCATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTgg                                                                                                                                                                                                     <  2:186554/90‑1 (MQ=255)                                                                                                                                                                                                                                                                   atCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAGAAAAAAGCACGCTACCGCCCCAGGCTCAACAGCTACCTGAATACTGATAACGCACTTACTTTGACGTGCTAg                                                                                                                >  2:144534/1‑166 (MQ=255)                                                                                                                                                                                                                                                                     ccccATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGCTTGTCTGGTTAAGTTAAGCAGAAAAAAGCACGCTACCGCCCCAGGCTCAACAGCTACCTGAATACTGATAACGCACTTACTTTGACGTGCTAGTGTATCATTTCTTTCGCAGCAATCCGACCCGAATGATTTTTATACACAAAATATACTTTAATCATAAAAATCAAATAGATAAAAAATAGCATTTCGATAATGTCAGTACg  <  1:158304/274‑1 (MQ=255)                                                                                                                                                                                                                                                                       ccATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAGAAAAAAGCACGCTACCGCCCCAGGCTCAACAGCTACCTGAATACTGATAACGCACTTACTTTGACGTGCTAGTGTa                                                                                                            <  1:144537/166‑1 (MQ=255)                                                                                                                                                                                                                                                                        cATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAGAAAAAAGCACGCTACCGCCCCAGGCTCaa                                                                                                                                                           >  2:121577/1‑118 (MQ=255)                                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                                            TACCAGCAGCGCCACCATCCACTGATCCGTAAGATTAATGACCAGGTCATAATTATTCGCACGCAGAGTTTTTATCAACGAAAGCACATTTTTAATTTTATCGAAAGTTCCCGCACCTTTATTGCTTATCCCATAGAGCGCATTAATTTCCGGGTTTTCAGACAAAATAGGGATGGTGTCCTGATAAAGCAGCATATCGATTTTTGCATCAGGATAATTCTGCTTGAGCGTACTGATGACAGGAGTAGTTAATAACATATCCCCATGATATCGCATCTTTATGACCAGGATTTTTCGAAATGGCTTTTCCACTAGCGACTCTTTTGTGTGATTGTCTGGTTAAGTTAAGCAGAAAAAAGCACGCTACCGCCCCAGGCTCAACAGCTACCTGAATACTGATAACGCACTTACTTTGACGTGCTAGTGTATCATTTCTTTCGCAGCAATCCGACCCGAATGATTTTTATACACAAAATATACTTTAATCATAAAAATCAAATAGATAAAAAATAGCATTTCGATAATGTCAGTACG  >  CP009273/3801183‑3801716

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ 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.