New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 3054218	56 (0.800)	1472 (0.880)	5/228	3.1	36.5%	coding (10/2145 nt)	scpA	methylmalonyl‑CoA mutase
	?	KX077536	= 964	5065 (1.550)					intergenic (–/‑135)	–/unknown	–/BLA
Rejected: Coverage evenness skew score above cutoff.

AAAATAGACAAATCTCAGGCGGCAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGATCTCGATAATCTGGAGG  >  CP009273/3054080‑3054353                                                                                                                                           |                                                                                                                                        aaaaTAGACAAATCTCAGGCGGCAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACg                                                                                                                                         <  1:3959845/139‑1 (MQ=255)   aaTTGACCAAACTCAAGAGGACAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTg                                                                                                                                       <  1:2774995/139‑1 (MQ=255)         cAAATCTCAGGCGGCAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGa                                                                                                                                  <  1:2904303/138‑1 (MQ=255)             tctcAGGCGGCAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGa                                                                                                                                  >  1:906693/1‑134 (MQ=255)             tctcAGGCGGCAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGc                                                                                                                             <  1:230247/139‑1 (MQ=255)               tcAGGCGGCAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCa                                                                                                                            >  1:1698234/1‑138 (MQ=255)                 aGGCGGCAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACa                                                                                                                         >  1:732082/1‑139 (MQ=255)                  ggcggcAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACa                                                                                                                         >  1:2462108/1‑138 (MQ=255)                     ggcAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCtt                                                                                                                     <  1:3397283/139‑1 (MQ=255)                      gcAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCtt                                                                                                                     >  1:156147/1‑138 (MQ=255)                       cAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTg                                                                                                                    >  1:298014/1‑138 (MQ=255)                        aaaaaaCGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGcc                                                                                                                  <  1:2470901/139‑1 (MQ=255)                                     tGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCACCAGCTTGCCAACAAGGAATTGa                                                                                                     <  1:1271204/139‑1 (MQ=255)                                           cATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTTTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTc                                                                                               >  1:664860/1‑139 (MQ=255)                                              tttttttGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGACAATACCCTCACTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCggg                                                                                            >  1:3072205/1‑139 (MQ=255)                                                                aCCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGc                                                                          <  1:889128/139‑1 (MQ=255)                                                                          aaaGCTCACCGGAGGCGCAAATACCATCATTTTGATAGCGTATTACGGAGCAAATAATGGCTAACGTGCAGGAGTGGAAACAGCTTGCCAACAAAGAATTGAGCCGTCGGGAGAAAAATGTCGAATCGCTGAGtcatca                                                                >  1:4081786/1‑139 (MQ=255)                                                                              cTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCgg                                                                                             <  1:1245484/106‑1 (MQ=255)                                                                                 aCCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACcgcg                                                         <  1:957266/139‑1 (MQ=255)                                                                                 aCCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACcgcg                                                         >  1:262717/1‑139 (MQ=255)                                                                                        gcgcAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTg                                                                                   >  1:3416866/1‑106 (MQ=255)                                                                                         cgcAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCCGGAGTGGCAAc                                                                                                                          <  1:3013981/66‑1 (MQ=255)                                                                                          gcAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGAt                                                 <  1:3038918/138‑1 (MQ=255)                                                                                                   cTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCcaa                                                                                                                >  1:841932/1‑66 (MQ=255)                                                                                                   cTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAg                                       <  1:1557203/139‑1 (MQ=255)                                                                                                   cTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAg                                       <  1:3173260/139‑1 (MQ=255)                                                                                                    tCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGc                                      <  1:2618413/139‑1 (MQ=255)                                                                                                    tCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGc                                      <  1:3868694/139‑1 (MQ=255)                                                                                                      aTTTTGATTGCGTTTTACGTCTCAAATAATGTCTAACGTGCAGGATTCCCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGccc                                    <  1:841005/139‑2 (MQ=255)                                                                                                      aTTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGcc                                     >  1:1993867/1‑138 (MQ=255)                                                                                                      aTTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCg                                    <  1:3760407/139‑1 (MQ=255)                                                                                                      aTTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCg                                    <  1:1857238/139‑1 (MQ=255)                                                                                                      aTTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCg                                    <  1:3098692/139‑1 (MQ=255)                                                                                                      aTTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCg                                    <  1:2329245/139‑1 (MQ=255)                                                                                                      aTTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCg                                    <  1:2844358/139‑1 (MQ=255)                                                                                                         ttGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCCTCAAGCCGCTg                                 <  1:1603099/139‑1 (MQ=255)                                                                                                            aTTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGtat                              >  1:4027407/1‑139 (MQ=255)                                                                                                              tGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGtata                             >  1:923959/1‑138 (MQ=255)                                                                                                                cGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATc                                                <  1:2584488/117‑1 (MQ=255)                                                                                                                cGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCg                          >  1:926750/1‑139 (MQ=255)                                                                                                                     tACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGcc                     >  1:647888/1‑139 (MQ=255)                                                                                                                          aGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGc                                      >  1:411789/1‑117 (MQ=255)                                                                                                                            cAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCg                                    <  1:998220/117‑1 (MQ=255)                                                                                                                             aaaTAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCATCAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGATCTCGa             <  1:2029650/139‑1 (MQ=255)                                                                                                                             aaaTAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCACCAAGCCGCTGTATACCGAAGCCGATCTCGa             <  1:2435650/139‑1 (MQ=255)                                                                                                                              aataatGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTc                                                                            <  1:2470531/75‑1 (MQ=255)                                                                                                                               ataatGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGAt                  <  1:3142450/132‑1 (MQ=255)                                                                                                                                taatGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGAt                  <  1:1050926/131‑1 (MQ=255)                                                                                                                                    gTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAg                                       <  1:2127353/106‑1 (MQ=255)                                                                                                                                    gTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGATCTCGATAAt         <  1:1584147/136‑1 (MQ=255)                                                                                                                                    gTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGATCTCGATAATCTg      >  1:2032336/1‑139 (MQ=255)                                                                                                                                      cTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCg                          >  1:3170060/1‑117 (MQ=255)                                                                                                                                      cTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGATCTCGATAATCTGGa    >  1:1510041/1‑139 (MQ=255)                                                                                                                                        aaCGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTtcat                                                                  >  1:297645/1‑75 (MQ=255)                                                                                                                                        aaCGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGATCTCGATAATCTGGAgg  >  1:455128/1‑139 (MQ=255)                                                                                                                                         aCGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGATCTCGATAATc        >  1:970565/1‑132 (MQ=255)                                                                                                                                          cGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGATCTCGATAATc        >  1:3222681/1‑131 (MQ=255)                                                                                                                                           |                                                                                                                                        AAAATAGACAAATCTCAGGCGGCAAAAAACGACGTCTGAATGCATTTTTTTTGCTGGCGACAAACCCACGTAAAAAGCTCACCGTAGGCGCAAATACCCTCATTTTGATTGCGTTTTACGGAGCAAATAATGTCTAACGTGCAGGAGTGGCAACAGCTTGCCAACAAGGAATTGAGCCGTCGGGAGAAAACTGTCGACTCGCTGGTTCATCAAACCGCGGAAGGGATCGCCATCAAGCCGCTGTATACCGAAGCCGATCTCGATAATCTGGAGG  >  CP009273/3054080‑3054353

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ 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.