New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4854420	21 (0.130)	11 (0.100)	11/186	NT	26.3%	intergenic (‑124/+173)	recR/ybaB	recombination protein RecR/nucleoid‑associated broad specificity regulator
	?	NC_002947	= 4854479	47 (0.410)					intergenic (‑183/+114)	recR/ybaB	recombination protein RecR/nucleoid‑associated broad specificity regulator

TGGCGGATGAGAGGGCTGAAGCTCATGGGAAAGGCCTGACAATTCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCCCCTTTCGCGACACAAGGCCGCTCCCACAAAAAAGCAGACCGCAACTGGGTTGAAATCTCCGCAAAAAAAACCGCCACTGTTGTCAGCGG  >  NC_002947/4854271‑4854569                                                                                                                                                      |                                                                                                                                                      tGGCGGATGAGAGGGCTGAAGCTCATGGGAAAGGCCTGACAATTCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGG                                                                                                                                                       <  2:1087289‑M1/150‑1 (MQ=255)  ggcggcTGACAGGGCAGAAGCGCAAGGGACAGGCCTGACAATTCCATACGAGGCGGTTTAGACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGc                                                                                                                                                      <  1:1650699/150‑1 (MQ=38)        tGAGAGGGCTGAAGCTCATGGGAAAGGCCTGACAATTCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGaa                                                                                                                                                <  1:2536508/150‑1 (MQ=255)        tGAGAGGGCTGAAGCTCATGGGAAAGGCCTGACAATTCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGaa                                                                                                                                                <  2:1712748/150‑1 (MQ=255)            agGGCTGAAGCTCAGGGGAAAGGCCTGACAATTCAATCAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAagcag                                                                                                                                            <  2:5054489/150‑1 (MQ=255)                  gAAGCTCCTGGGAAAGGCCTGACAATTCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAAGCAGCCCCgg                                                                                                                                      <  2:5444369/150‑1 (MQ=255)                   aaGCTCATGGGAAAGGCCTGACAATTCAATAAGAGGCGGTTTATACCCAGGGGGGGCGGTGGCTTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGATTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAAGCAGCCCCGGc                                                                                                                                     <  2:5229313/150‑1 (MQ=255)                             gAAAGGCCTGACAATTCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGc                                                                                                                                                   >  1:1411853/1‑126 (MQ=255)                             gAAAGGCCTGACAATTCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGc                                                                                                                                                   <  2:1411853/126‑1 (MQ=255)                                     tcaCATTTCAATACGCGGCGTTTTATCCCCCGGGGGGGCGGGGGCTTAAAATCACCTCGCCAAACGCCTGCACGGTCTGCTTTTTTGTGGGAGCGGCGTTGTTTCGCTAACGGGCGGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCt                                                                                                                   <  2:1236770/148‑1 (MQ=21)                                     tGACAATTCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCt                                                                                                                   >  1:52449/1‑150 (MQ=255)                                      gACAATTCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTg                                                                                                                  >  1:793355/1‑150 (MQ=255)                                       acaatacaatACGCGGGTGTTTATCCCCCGCGGGGGGGGTGGCGTCAAATCACCTCGCCCAACGCCTGCATGGTCTGCTTTTTTGTGGGAGGGGCTTTGTGTCGCGAACGGGCTGCGAAGCCGCCCCGGCACTCTGTGCTGCGAAGCTGa                                                                                                                 <  2:1309017/150‑1 (MQ=25)                                       aaaaTTCAATAAGGGGCGTTTTATCCCCGGGGGGGGGGGTGGGGTAAAATCCCCCCGCCCAACGCCTGCATGGTCTGATTTTTGGTGGGAGCGGCCTTGTGTCGCTAACGGGCTGCTAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGa                                                                                                                 <  2:4812272/148‑1 (MQ=255)                                        cAATTCACTAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGgcgcgaagcggccccgggatttctgcttcgcagcacaga                                                                                                                <  2:3494842‑M1/150‑40 (MQ=255)                                            tCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGgcgcgaagcggccccgggctttcagcttcgcagcacagagtgc                                                                                                            >  2:4462073‑M1/1‑107 (MQ=255)                                            tCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATcc                                                                                                            >  1:859036/1‑150 (MQ=255)                                            tCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAAGCACCCCCCGCACGCAGTGCTGCGAAGCTGAAAAcc                                                                                                            >  1:4510817/1‑150 (MQ=38)                                              aaTAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAagc                                                                                                                                              <  2:914581/114‑1 (MQ=255)                                              aaTAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAagc                                                                                                                                              >  1:914581/1‑114 (MQ=255)                                                   gagGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTg                                                                                                                                                    >  1:1412798/1‑103 (MQ=255)                                                   gagGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTg                                                                                                                                                    <  2:1412798/103‑1 (MQ=255)                                                      gCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGgcgcgaagcggccccgggatttcagcttcgcagcacagagtgccggggctgct                                                                                                  <  1:1744572‑M1/150‑54 (MQ=255)                                                        ggTTTATACCCTGGGGGGGGGGGGGCGTAAAAGCACCTCCCCCACCGCCTCCATGGTCTGCTTTTTTGGGGGCGCGGCCTTGTGTCGCGACAGGGCTGCGACCCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTc                                                                                                <  2:3437908/150‑1 (MQ=255)                                                        ggTTAATCCCCCGGGGGGGCGGGGGCGACAAATCACCTCGCCCAACGCCTGCACGGTCTGATTTTTGGTGGGAGCGGCCTTGTGTCGCGAACGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTc                                                                                                <  2:5451273/150‑1 (MQ=37)                                                          tttACACCCTGGGGGGGGGGTGGCTTAAAAACCCCTCCCCAAACGCCTGAATGGTCTGATTTTTTGTGGGCGGGGCCTTGTGTCGCTAAGGGGCTGCCAAGCACCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTcgc                                                                                              <  1:3619535/150‑1 (MQ=255)                                                           ttATACCCCGGGGGGGCGGTGGCGTCAAATCCCCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGGGTCGCGAAAGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTcgcg                                                                                             <  2:5322304/150‑1 (MQ=255)                                                           ttATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGctgcgaagcggccccgggatttcagcttcgcagcacagagtgccggggctgcttcgca                                                                                             <  1:3810025‑M1/150‑59 (MQ=255)                                                             ataCCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGgcgcgaagcggccccgggatttcagcttcgcagcacagagtgccggggctgcttcgcagc                                                                                           <  1:1657697‑M1/150‑61 (MQ=255)                                                              taCCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGgcgcgaagcggccccgggatttcagcttcgcagcacagagtgccggggctgcttcgcagcc                                                                                          <  1:5328530‑M1/150‑62 (MQ=255)                                                                   aGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGgcgcgaagcggccccgggatttcagcttcgcagcacagagtgccggggctgcttcgcagccctttc                                                                                     <  1:73325‑M1/150‑67 (MQ=255)                                                                     cGGGGGCGGTGGCGTCAAATCACCTCGCCCACAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGgcgcgaagcggccccgggatttcagcttcgcagcacagagtgccggggctgcttcgcagccctttcgc                                                                                   <  2:4108413‑M1/150‑69 (MQ=255)                                                                       ggggggggggCTTCAAAACCCCCCCCCAAACGCCGGAAGGTTCTGCTTTTTTGTGGGCGCGGGTTTGTGCCGCTAAGGGGGTGGCACCCCGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCCCCTTTCGCGa                                                                                 <  2:1480614/150‑1 (MQ=255)                                                                              gggcGTCAAATCACCGCGCCCAACGCCTGCATGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAACGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCccctttcgcgacacaagg                                                                          >  2:4510817‑M2/2‑132 (MQ=255)                                                                               ggCGTCAAATCACCTCGCCCAAAGCGTGCATGGTCTGATTTTTTGTGGGAGCGGCCTTGTGTCGCTAATGGGgcgcgaagcggccccggtttttcagcttcgcagcacatagtgccggggctgcttcgcagccctttcgcgacacaaggc                                                                         <  1:4462073‑M1/150‑79 (MQ=255)                                                                                             tCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGctgcgaagcggccccgggatttcagcttcgcagcacagagtgc                                                                                                            <  2:3075308‑M1/101‑44 (MQ=255)                                                                                             tCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGctgcgaagcggccccgggatttcagcttcgcagcacagagtgc                                                                                                            >  1:3075308‑M1/1‑58 (MQ=255)                                                                                                                  tGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGgcgcgaagcggccccgggatttcagcttcgcagcacagagtgccgggg                                                                                                       <  2:3602979‑M1/85‑49 (MQ=255)                                                                                                                  tGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGgcgcgaagcggccccgggatttcagcttcgcagcacagagtgccgggg                                                                                                       >  1:3602979‑M1/1‑37 (MQ=255)                                                                                                                                    gCCTTGTGTCGCGAAAGGGCTGCGAAGCAGCCCCGGCACTATGTGCTGCGAAGCTGAAAAACCGGGGCCGCTTCGCGCcccattagcgacacaaggccgctcccacaaaaaatcagaccatgcacgctttgggcgaggtgatttgacgcc                    <  1:4462073‑M2/150‑73 (MQ=255)                                                                                                                                     ccTTGTGTCGCGAAAGGGgcgcgaagcggccccgggatttcagcttcgcagcacagagtgccggggctgcttcgcagcccgttcgcgacacaaggccgctcccacaaaaaagcagaccatgcaggcgttgggcgcggtgatttgacgccc                   >  2:4510817‑M1/1‑18 (MQ=255)                                                                                                                                      cTTGTGTCGCGAAAGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCCCCTTTCGCGACACAAGGCCGCTCCCACAAAAAAGCAGACCGCAACTGGGTTGAAATCTCCGCAAAAAAAACCg                  >  2:3966051/1‑150 (MQ=255)                                                                                                                                      cTTGTGTCGCGAAAGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCCCCTTTCGCGACACAAGGCCGCTCCCACAAAAAAGCAGACCGCAACGGGGTTGACATCTCCGCAAAAAAAACCg                  >  2:3202911/1‑150 (MQ=255)                                                                                                                                              gcgAAAGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCccctttcgcgacacaaggccgctcccacaaaaaagcagaccttgcaggctgtgggcgaggtgatttgacgccaccgcccccg          <  2:4108413‑M2/150‑83 (MQ=255)                                                                                                                                                gAAAGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCccctttcgcgacacaaggccgctcccacaaaaaagcagaccttgcaggctttgggcgaggtgatttgacgccaccgcccccgct        <  1:73325‑M2/150‑85 (MQ=255)                                                                                                                                                  cggggCTGCTTCGCAGCCCTGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCCCCTTTCGCGACACAAGGCCGCTCCCACAAAAAAGCAGACCGCAACTGGGTTGAAATCTCCGCAAAAAAAACCGCCACTGTTGTCa      >  2:1058205/3‑150 (MQ=255)                                                                                                                                                    gggCTGCTTCGCAGCCCTGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCCCCTTTCGCGACACAAGGCCGCTCCCACAAAAAAGCAGACCGCAACTGGGTTGAAATCTCCGCAAAAAAAACCGCCACTGTTGTCAgc    >  2:351706/1‑150 (MQ=255)                                                                                                                                                     ggCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCccctttcgcgacacaaggccgctcccacaaaaaagcagaccttgcaggctttgggcgaggtgatttgacgccaccgcccccgctgggta   <  1:5328530‑M2/150‑90 (MQ=255)                                                                                                                                                      gCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCccctttcgcgacacaaggccgctcccacaaaaaagcagaccttgcaggctttgggcgaggtgatttgacgccaccgcccccgctgggtat  <  1:1657697‑M2/150‑91 (MQ=255)                                                                                                                                                      gCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCCCCTTTCGCGACACCAGGCCGCGCCCACAAAAAAGCAGACCGCAACTGGGTTGAAATCTCCGCAAAAAAAACCGCCACTGTTGTCAgcgg  >  1:4553138/1‑150 (MQ=255)                                                                                                                                                      gCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCCCCTTTCGCGACACAAGGCCGCTCCCACAAAAAAGCAGACCGCAACTGGGTTGAAATCTCCGCAAAAAAAACCGCCACTGTTGTCAgcgg  >  1:2703429/1‑150 (MQ=255)                                                                                                                                                      |                                                                                                                                                      TGGCGGATGAGAGGGCTGAAGCTCATGGGAAAGGCCTGACAATTCAATAAGAGGCGGTTTATACCCAGCGGGGGCGGTGGCGTCAAATCACCTCGCCCAAAGCCTGCAAGGTCTGCTTTTTTGTGGGAGCGGCCTTGTGTCGCGAAAGGGCTGCGAAGCAGCCCCGGCACTCTGTGCTGCGAAGCTGAAATCCCGGGGCCGCTTCGCGCCCCTTTCGCGACACAAGGCCGCTCCCACAAAAAAGCAGACCGCAACTGGGTTGAAATCTCCGCAAAAAAAACCGCCACTGTTGTCAGCGG  >  NC_002947/4854271‑4854569

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ 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.