New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	3416721 =	36 (0.380)	12 (0.010) +G	8/232	5.7	12.9%	intergenic (+168/+61)	yhdZ/rrfF	putative amino‑acid transporter subunit/5S ribosomal RNA of rrnD operon
	?	KX077536	8 =	127 (0.040)					intergenic (–/‑1091)	–/unknown	–/BLA
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CATCCTTTCGGATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCG  >  CP009273/3416583‑3416859                                                                                                                                            |                                                                                                                                           cATCCTTTCGGATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCAc                                                                                                                                            <  1:2561870/139‑1 (MQ=255)      tttCGGATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGaca                                                                                                                                       <  1:979027/139‑1 (MQ=255)      tttCGGATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGaca                                                                                                                                       <  1:3748235/139‑1 (MQ=255)      tttCGGATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGaca                                                                                                                                       <  1:162037/139‑1 (MQ=255)              ggCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGGGTTCACCGACAAACAACAg                                                                                                                               >  1:1166743/1‑139 (MQ=255)                    tCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTTGCAACGTTTAAATCCGCTCCCGGCGGATTTGTCCTACTCCGGAGAGTGTTCACCGACAAACAACAGATaaaa                                                                                                                         >  1:1331275/1‑139 (MQ=255)                        ttgatttgatGTCTGGCAGTTTATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACaa                                                                                                                      <  1:2359455/138‑1 (MQ=255)                          gatttgatGTCTGGCAGTTTATGGCGGGCGGCCTGCCCGCCCACCCCCCCGTCCG‑TGCTTCCCCACGTTCAAAACCCCCCCCCGGGGGTTTGTTCCCCTCGGGAGGGGGGTCACCGCCAAACAACAGATAAAACaaaaa                                                                                                                   >  1:5016071/1‑138 (MQ=2)                                     tGGCAGTTTATGGCGGGCGTCCTGCCCC‑CCCCCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCCGCGGATTTGTCCTACTCCGGAGAGGGTTCACCGACAAACAACAGATAAAACAAAAAGCCCCGTCtt                                                                                                         >  1:1716463/1‑138 (MQ=11)                                         aGTTTATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGa                                                                                                     <  1:3352356/138‑1 (MQ=37)                                           tttATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGacaaaca                                                                                                                                   <  1:2482205/106‑1 (MQ=35)                                                  cgggcgTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCtt                                                                                            <  1:3912504/138‑1 (MQ=37)                                                           tGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTAtt                                                                                  <  1:881107/139‑1 (MQ=40)                                                             cccG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTg                                                                                <  1:2590435/139‑1 (MQ=40)                                                             cccG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTg                                                                                <  1:3898598/139‑1 (MQ=40)                                                              ccG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTg                                                                                <  1:752412/138‑1 (MQ=40)                                                                      ccTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTgg                                                                        <  1:2185631/139‑1 (MQ=255)                                                                                 ttGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGa                                                                                                                                         >  1:300477/1‑63 (MQ=40)                                                                                 ttGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCt                                                               >  1:3629324/1‑137 (MQ=255)                                                                                  tGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTAct                                                            <  1:2437121/139‑1 (MQ=255)                                                                                        gCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCa                                                      <  1:5064484/139‑1 (MQ=255)                                                                                         cAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGa                                                                                                 <  1:3595680/95‑1 (MQ=40)                                                                                              ttCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGga                                                >  1:2485613/1‑139 (MQ=255)                                                                                                   aTCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGtt                                                                                       >  1:1013939/1‑95 (MQ=255)                                                                                                   aTCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGAccc                                           <  1:1604314/139‑1 (MQ=255)                                                                                                   aTCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGAccc                                           <  1:4296866/139‑1 (MQ=255)                                                                                                      cGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGACTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCcac                                        >  1:1193149/1‑139 (MQ=255)                                                                                                        cTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGTGACCCcac                                        >  1:4184996/1‑137 (MQ=255)                                                                                                                    ttGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACt                                                                                                   <  1:696932/66‑1 (MQ=255)                                                                                                                             tCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGtt                 <  1:4585055/139‑1 (MQ=255)                                                                                                                              cGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTg                                                                                         >  1:3279081/1‑66 (MQ=255)                                                                                                                                   gagTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTccc                                                                <  1:3792783/86‑1 (MQ=255)                                                                                                                                    agTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACt            >  1:2005269/1‑137 (MQ=255)                                                                                                                                      tgtTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGAccc                                           <  1:2846514/104‑1 (MQ=255)                                                                                                                                      tgtTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTg        >  1:4106174/1‑139 (MQ=40)                                                                                                                                      tgtTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTg        >  1:2403269/1‑139 (MQ=40)                                                                                                                                            ccGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCg  >  1:1908900/1‑139 (MQ=40)                                                                                                                                            |                                                                                                                                           CATCCTTTCGGATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCG‑CCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCTACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCG  >  CP009273/3416583‑3416859

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ 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.