New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 3409562	23 (0.570)	4 (0.110)	3/294	NT	13.6%	coding (1171/3105 nt)	acrF	multidrug efflux system protein
	?	CP009273	= 3409649	29 (0.760)					coding (1258/3105 nt)	acrF	multidrug efflux system protein

CGAAAGCCATTAAGGCAAAACTGGCGGAATTACAGCCATTCTTCCCGCAGGGAATGAAGGTTCTCTACCCTTATGACACCACGCCATTCGTCCAGCTTTCTATTCACGAAGTGGTAAAAACGCTGTTCGAAGCCATTATGCTGGTGTTCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGCGCACTGGTGGGTATCGCGATGGTGCTGTCAGCGGTATTTATTCCGATGGCATTCTTCGGCGGTTCTACTGGGGCAATTTATCGCCAGTTCTC  >  CP009273/3409299‑3409803                                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                  cgAAAGCCATTAAGGCAAAACTGGCGGAATTACAGCCATTCTTCCCGCAGGGAATGAAGGTTCTCTACCCTTATGACACCACGCCATTCGTCCAGCTTTCTATTCACGAAGTGGTAAAAACGCTGTTCGAAGCCATTATGCTGGTGTTCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCCTCAACACACTCACg                                                                                                                                                                                                                                        >  2:672688/1‑275 (MQ=255)                                            cccGCAGGGAATGAAGGTTCTCTACCCTTATGACACCACGCCATTCGTCCAGCTTTCTATTCACGAAGTGGTAAAAACGCTGTTCGAAGCCATTATGCTGGTGTTCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCaa                                                                                                                                                                                                                                                  <  2:381398/222‑1 (MQ=255)                                                                         aTGACATCACGCCATTCGTCCAGCTTTCTATTCACGGAGTGTTAAAAACGCTGTTCGAAGTCATGATGCTGGTTTTCGTGGTGATGTATCTGTTCTTGCGGAATCTGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGAGTCGTTAGGGACGTATATCATCTCCGCCGCTCTTGTTATCTCCATCATCACACTAAACCGTTTCAGGACGTTGGTTGCCATCGGGCCACACGGCGGTGATGCGCGAGTGGGGGTGNNTaatggcggcc                                                                                                                                                                  >  2:526772/1‑265 (MQ=255)                                                                                                               gTGGTAAAAACGCTGTTCGAAGCCATTATGCTGGTGTTCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGAtgatgga                                                                                                                                                     <  1:140013‑M2/248‑8 (MQ=255)                                                                                                                            tGTTCGAAGCCATTATGCTGGTGTTCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGGGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACTATGTTCGTGATGTTGCTTGCCATCGGTCTGCTCGTCGATGCTGCGATAGGGGTGGTGGAGAACGTAGAGCGCGTGATGAGGGAGGATAAGCGCCCGCCAAATGACGCGACGGGNGAATcacgg                                                                                                             >  2:279481/1‑271 (MQ=255)                                                                                                                                cGAAGCCATTATGCTGGTGTTCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTAGCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATACACACACTCACGATGTNCGGGATGGTGCTTGCCATCGGGCTGCTCGTCCATGATGCGAAAGCGGTGGTGGAGAACGTCGAGCGCGTGATGATGTAGGATAAGCTCCCTCCAAAAAAAGGGCCGAAAAAAACAATGt                                                                                                            >  1:612409/1‑272 (MQ=255)                                                                                                                                              tGGTGTTCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACNCCATCAACACATTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGCGCa                                                                                           <  1:672702/275‑1 (MQ=255)                                                                                                                                                gtgtTCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGtg                                                                                                                                                             >  2:270110/1‑207 (MQ=255)                                                                                                                                                gtgtTCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCACGTCGATGATGCGATAGTGNTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGCGCACt                                                                                         >  1:577053/1‑275 (MQ=255)                                                                                                                                                   ttaaaggTGATGTTTCTGTTCTTGATGTCTATGCGAGCAACGCTGATTCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCGTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGCGCACtggt                                                                                      <  2:577040/270‑1 (MQ=255)                                                                                                                                                    tCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGAtga                                                                                                                                                         >  1:270114‑M2/1‑204 (MQ=255)                                                                                                                                                                       cTTGCAGAATATGCGAGCAACGCTGATCCCCCCCATTGCGGTACCCGTGGTGTTGTTAGGCACGTTTGCCCTCCTCGCCGCTTTTCGTTACTCCCTCCACACACTACCGATTTTCGGGATGGTGCTTGCCATCTGGCTGCCCTTCGATGTTCCGCTCGTGGTGGTGGCGAACGTCgcg                                                                                                                                                                   >  2:75538/1‑176 (MQ=255)                                                                                                                                                                           cAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCt                                                                                                                                                                                                                       <  2:657574/122‑1 (MQ=255)                                                                                                                                                                                        cAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCtt                                                                                                                                                                                                                      >  2:700333/1‑110 (MQ=255)                                                                                                                                                                                            gCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCa                                                                                                                                                                                                                  <  1:700347/110‑1 (MQ=255)                                                                                                                                                                                            gCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGAGGATGGAGGGTAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAAAACAGGGGGAACTGGGGGGTATAGAGAGGGTGGGGTGAGGGGGATTTNTTcctgtct                                             >  2:277793/1‑270 (MQ=255)                                                                                                                                                                                                ttCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGGGCACTGGTGGGTATCGCGATGGTGCTGTCAGc                                                              <  1:277798/253‑1 (MQ=255)                                                                                                                                                                                                          ttGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAtcacgcgctcgacgttctccaccaccactatcgcatcatcgacgagcagcccgatggcaagcaccatccc                                                                                                                                                                             >  1:120599‑M1/1‑63 (MQ=255)                                                                                                                                                                                                          ttGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAtcacgcgctcgacgttctccaccaccactatcgcatcatcgacgagcagcccgatggcaagcaccatcc                                                                                                                                                                              >  2:732159‑M1/1‑63 (MQ=255)                                                                                                                                                                                                              ggTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGTCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGCGCACtggt                                                                                      <  1:405367/216‑1 (MQ=255)                                                                                                                                                                                                              ggTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAtcacgcgctcgacgttctccaccaccactatcgcatcatcgacgagcagcccgatggcaagcaccatcccgaac                                                                                                                                                                         <  2:120598‑M1/133‑75 (MQ=255)                                                                                                                                                                                                              ggTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAtcacgcgctcgacgttctccaccaccactatcgcatcatcgacgagcagcccgatggcaagcaccatcccgaa                                                                                                                                                                          <  1:732173‑M1/132‑74 (MQ=255)                                                                                                                                                                                                                      tggtgTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAac                                                                                                                                                                                                                                                 <  1:637788/53‑1 (MQ=255)                                                                                                                                                                                                                                   gACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTCACGATGTTCGGGATGGTGCTTGCCATAGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGAGCGCGATGATGGCGGATATGCTCACGACAAAAGAAGCGACGGACACATCGATGTCGCAAATTCAGGGCGCACTGGTGGGTATCGCGATGGTGCTGTCAGCGGTATTTATTCCGCTGGAATTCTTCGGCGAGTTTACTTGGGNNACTTagctact        >  2:526921/1‑267 (MQ=255)                                                                                                                                                                                                                                     cGTTTGCCATCCTCGCCGCTTTTGGTAACTCCATGAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGACGCAAATTCAGGNCGCACTGGNGGGTATCGCGATGGTGCTGTCAGCGGTATTTATTCCGATGGCATTCTTCGGCGGTTCTACTGGGGCAATTTATCGCCAGTtc    >  1:491697/1‑275 (MQ=255)                                                                                                                                                                                                                                       tttGCCATCCTCGCCGCTTTTGGTTACTCCATCaa                                                                                                                                                                                                                                                  <  1:35330/35‑1 (MQ=255)                                                                                                                                                                                                                                        ttGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGCGCACTGGTGGGTTTCGCGATGGTGCTGt                                                                  >  2:221533/1‑210 (MQ=255)                                                                                                                                                                                                                                        ttGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGCGCACTGGTGGGTATCGCGATGGTGCTGTCAGCGGTATTTATTCCGATGGCATTCTTCGGCGGTTCTACTggg                      >  1:66216/1‑254 (MQ=255)                                                                                                                                                                                                                                         tGCCATCCTCGCCGCGTTTGGGTGATCCACCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAg                                                                                                 >  1:513261/1‑178 (MQ=255)                                                                                                                                                                                                                                            cATCCTCGCCGCTTTTGGTTACTCCATCAGCACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGCGCACTGGTGGGTATCGCGATGGTGCTGTCAGCGGTATTTATTCCGATGGCATTCTTCGGCGGTTCTACTGGGGCaa                  <  2:66215/254‑1 (MQ=255)                                                                                                                                                                                                                                            cATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGCGCACTGGTGGGTATCGCGATGGTGCTGTCAGc                                                              <  1:221535/210‑1 (MQ=255)                                                                                                                                                                                                                                             aTCCTCGCCGCTTTTGGTTACTCCAGCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTGGATGATGAGATAGTGGTGGTGGAGAACGTCGAGCGAGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGgcg                                                                                             <  2:513252/178‑1 (MQ=255)                                                                                                                                                                                                                                                                  tCCATCAtcacgcgctcgacgttctccaccaccactatcgcatcatcgacgagcagcccgatggcaagcaccatcccgaacatcgttagtgtgttgatggagtaaccaaaagcggcgaggatggcaaacgtccctaacaacaccacgggtaccgcaatggtggggatcagcgttgctcgcatattctgcaagaacagatacatcaccaggaacaccagcataatggcttcgaacagcgtttttaccac  <  1:140013‑M1/248‑242 (MQ=255)                                                                                                                                                                                                                                                                    catcatcacgcgctcgacgttctccaccaccactatcgcatcatcgacgagcagcccgatggcaagcaccatcccgaacatcg                                                                                                                                                                     >  1:657768‑M1/1‑5 (MQ=255)                                                                                                                                                                                                                                                                      tcatcacgcgctcgacgttctccaccaccactatcgcatcatcgacgagcagcccgatggcaagcaccatcccgaacatcgttagtgtgttgatggagtaaccaaaagcggcgaggatggcaaacgtccctaacaacaccacgggtaccgcaatggtggggatcagcgttgctcgcatattctgcaagaacagatacatcaccagga                                       >  1:270114‑M1/1‑3 (MQ=255)                                                                                                                                                                                                                                                                        atcacgcgctcgacgttctccaccaccactatcgcatcatcgacgagcagcccgatggcaagcaccatcccgaacatcgttag                                                                                                                                                                 <  2:657754‑M1/83‑83 (MQ=255)                                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                  CGAAAGCCATTAAGGCAAAACTGGCGGAATTACAGCCATTCTTCCCGCAGGGAATGAAGGTTCTCTACCCTTATGACACCACGCCATTCGTCCAGCTTTCTATTCACGAAGTGGTAAAAACGCTGTTCGAAGCCATTATGCTGGTGTTCCTGGTGATGTATCTGTTCTTGCAGAATATGCGAGCAACGCTGATCCCCACCATTGCGGTACCCGTGGTGTTGTTAGGGACGTTTGCCATCCTCGCCGCTTTTGGTTACTCCATCAACACACTAACGATGTTCGGGATGGTGCTTGCCATCGGGCTGCTCGTCGATGATGCGATAGTGGTGGTGGAGAACGTCGAGCGCGTGATGATGGAGGATAAGCTCCCGCCAAAAGAAGCGACGGAAAAATCGATGTCGCAAATTCAGGGCGCACTGGTGGGTATCGCGATGGTGCTGTCAGCGGTATTTATTCCGATGGCATTCTTCGGCGGTTCTACTGGGGCAATTTATCGCCAGTTCTC  >  CP009273/3409299‑3409803

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 34 ≤ 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.