New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	879032 =	20 (0.730)	6 (0.220)	5/226	NT	23.1%	intergenic (‑188/‑97)	ybjG/mdfA	undecaprenyl pyrophosphate phosphatase/multidrug efflux system protein
	?	CP009273	= 3577555	NA (NA)					intergenic (+15/‑1)	insB1/yrhA	IS1 transposase B/pseudogene, interrupted by IS1E

AAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCCGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGAT  >  CP009273/878759‑879301                                                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                                              ctggggcgtcttatgagcctgctgtcaccctttgacgtggtgatatggatgacggatggctggccgctgtatgaatcccgcctgaagggaaagctgcacgtaatcagcaagcgatatacgcagcgaattgagcggcataacctgaagctgaggcagcanctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccAg                                                                                                                                                                                                                                                                              <  1:611149‑M1/2‑1 (MQ=255)                                            cgTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCCGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTACCGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCg                                                                                                                                                                                                                                   >  1:308757/1‑275 (MQ=255)                                                        agaATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCCGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCggtgataatgccaacttactgatttagtgtatgactgtctcttctac                                                                                                                                                                                                                        <  1:291449‑M2/274‑48 (MQ=255)                                                                                                   cgtaatcagagagcgatatacgcagcgaattgagcggcataacgtgaatctgaggcagaccctggcacggctgggaccgcaggcgccgtcgtactcaacatcggtggagctgcatggcaacgtcatcgggcatcaaccgaacataaaacactatcaataagttggagtcattaccAGAATGTGCTTAACCGTGGTTTCAGCTACAAACTTCGCTTTCTCGTTAGCTGCCCTTTTATTAAACTCTGCGCGCTTATTATTGGCGAAGAACTtgca                                                                                                                                                                              <  2:213800‑M1/98‑1 (MQ=255)                                                                                                                          gtgcggaaaNTCGTTGAGAATAAAGTGCATGTTAATCTGGGTACTGCGTCTTCTTCTTATTTCCCGCAAGCGGACTTTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATTAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGc                                                                                                                                                     <  2:261866/268‑1 (MQ=255)                                                                                                                                    tCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCggtgatgctgccaacttactgatttagtgtatgatggtgttttggaggtgttctagtggcttctgtttctatcagctgtccctcctgttaagttacggacggggggggtcggaaggggaaaaga                                                                                                                                           <  2:621810‑M2/275‑125 (MQ=255)                                                                                                                                                aaGTGCAGGTTAAACTGGGTAAATCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGTATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTATTAATGTAAGAATGTGCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacat                                                                                                                               >  1:621821‑M2/1‑139 (MQ=255)                                                                                                                                                             cacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCg                                                                                                                                                         <  2:512239‑M1/119‑1 (MQ=255)                                                                                                                                                                 tggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGc                                                                                                                                                     >  1:512249‑M1/114‑236 (MQ=255)                                                                                                                                                                                          cTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTCTTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCTCTACTTGTCTGGTGCTTTACGACttggaaatggat                                                                                     >  2:99128/1‑265 (MQ=255)                                                                                                                                                                                                             gtgggtgATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATCATGTAAGAATGTGCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtcactcctgttaagctactgacggggtggtgcgtaacggcaaaagcaccgtcggaaatcagcgctatctatgctctccatgccgtaaaacatggctcatgcagttcaattacaacgct                                                                   <  1:48847‑M2/274‑197 (MQ=255)                                                                                                                                                                                                                 gtgATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCt                                                                                                                                                                                                                             >  2:410624/1‑116 (MQ=255)                                                                                                                                                                                                                     ttGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTgcgc                                                                                                                                                                                                                         <  1:410629/116‑1 (MQ=255)                                                                                                                                                                                                                              gCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATATTGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATtgcatg                                                                                                                                                                            >  1:627865/1‑152 (MQ=255)                                                                                                                                                                                                                               cATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTTGGcc                                                 >  1:325123/1‑274 (MQ=255)                                                                                                                                                                                                                                  aGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCaaa                                                                                                                                                                        <  2:627854/152‑1 (MQ=255)                                                                                                                                                                                                                                    gTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGCTTTc                                                                                                                                                                                                                                                         >  1:529935/1‑69 (MQ=255)                                                                                                                                                                                                                                       aaataaaACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCa                                                                                                                                      >  2:458408/1‑181 (MQ=255)                                                                                                                                                                                                                                        aataaaACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATtgcatg                                                                                                                                                                            >  1:478727/1‑142 (MQ=255)                                                                                                                                                                                                                                        aataaaACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGCTTTCAGCt                                                                                                                                                                                                                                                     <  2:529924/69‑1 (MQ=255)                                                                                                                                                                                                                                           aaaaCTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGATTCCAGTGCCAGTCTTGGACGTCAGGCg                                                                                                                                  <  1:458414/181‑1 (MQ=255)                                                                                                                                                                                                                                            aaaCTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCaaa                                                                                                                                                                        <  2:478719/142‑1 (MQ=255)                                                                                                                                                                                                                                              aCTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTa                                                                                                                                                                                                                                                                    >  2:267542/1‑48 (MQ=255)                                                                                                                                                                                                                                              aCTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTTGGCCGTGGTGGAACAatat                                  <  1:99128/274‑1 (MQ=255)                                                                                                                                                                                                                                                  taaaacactatcaataagttggagtcattaccAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAgg                              >  1:213804‑M1/33‑274 (MQ=255)                                                                                                                                                                                                                                                  aaagaaagCGTAGCTATACTCGTAATAATGTAAGAATGTGCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagct                                                                                                                                                                                          <  2:609420‑M2/118‑78 (MQ=255)                                                                                                                                                                                                                                                  aaagaaagCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCg                                                                                                                                                                                                                                                                <  1:267546/48‑1 (MQ=255)                                                                                                                                                                                                                                                      aaagCGTAGCTATACTCGTAATAATGTAAGAATGTGCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtcc                                                                                                                                                                                      >  1:609431‑M2/1‑37 (MQ=255)                                                                                                                                                                                                                                                       aagCGTAGCTATACTCGTAATAATGTAAGAATGTGCggtgatgctgccaacttactgat                                                                                                                                                                                                                                                <  1:209527‑M2/59‑24 (MQ=255)                                                                                                                                                                                                                                                           gTAGCTATACTCGTAATAATGTAAGAATGTGCggtgatgctgccaacttactgatttag                                                                                                                                                                                                                                            >  2:209523‑M2/1‑32 (MQ=255)                                                                                                                                                                                                                                                           accaataagttggagtcattaccAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCtt                                                                                                       <  1:309977‑M1/169‑1 (MQ=255)                                                                                                                                                                                                                                                               ataagttggagtcattaccAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACg                                                                                                   >  2:309972‑M1/20‑192 (MQ=255)                                                                                                                                                                                                                                                                       gTAATAATGTAAGAATGTGCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttc                                                                                                                                                                             <  1:85087‑M2/110‑91 (MQ=255)                                                                                                                                                                                                                                                                       gTAATAATGTAAGAATGTGCggtgatgctgccaacttactgatttag                                                                                                                                                                                                                                            <  2:131128‑M2/47‑28 (MQ=255)                                                                                                                                                                                                                                                                       gTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTAc        >  1:149298/1‑275 (MQ=255)                                                                                                                                                                                                                                                                         aataatGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAActc                                                                                                                                                                                                            >  1:654330/1‑77 (MQ=255)                                                                                                                                                                                                                                                                          ataatGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTATCTCGTTAGCTGCGCTTTTATTAAActc                                                                                                                                                                                                            >  1:625135/1‑76 (MQ=255)                                                                                                                                                                                                                                                                           taatGTAAGAATGTGCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagct                                                                                                                                                                         >  2:85087‑M2/1‑16 (MQ=255)                                                                                                                                                                                                                                                                           taatGTAAGAATGTGCggtgatgctgccaacttactgatttagtgta                                                                                                                                                                                                                                        >  1:131129‑M2/1‑16 (MQ=255)                                                                                                                                                                                                                                                                             atGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTgcg                                                                                                                                                                                                        <  2:654319/77‑1 (MQ=255)                                                                                                                                                                                                                                                                              tttAAGAATGGGTGTAGCCGTGTTTTAAGTTAAAAAATTCGCTTTCTCGTTAGCTCCTCTTTTATTAAACTCTGCGCGATGATTATTGGCGAAGAAATTGCCTTCAAAATAAATTAGCTTCCTGTGCCATGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGAt  <  2:325118/272‑1 (MQ=255)                                                                                                                                                                                                                                                                              tGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTgc                                                                                                                                                                                                                           >  2:558939/1‑57 (MQ=255)                                                                                                                                                                                                                                                                              tGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTgcg                                                                                                                                                                                                        <  2:625124/76‑1 (MQ=255)                                                                                                                                                                                                                                                                               gTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAAc                                                                                                                                                                                                              >  1:519244/1‑69 (MQ=255)                                                                                                                                                                                                                                                                                  aGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCtt                                                                                                                                                                                                                       <  1:558950/57‑1 (MQ=255)                                                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                                              AAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCCGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAACTCTGCGCGATTATTATTGGCGAAGAAATTGCATGCAAAATAAATTAGCTTCCGGTGCCAGGCTTGGACGTCAGGCGTTACTTTTCCCTCTCTGTCTGGTGCTTTACGAATTTTCAACCTATATCGGCAACGATATGATTCAACCCGGTATGTTGGCCGTGGTGGAACAATATCAGGCGGGCATTGATTGGGTTCCTACTTCGAT  >  CP009273/878759‑879301

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 21 ≤ 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.