New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1978502	9 (0.190)	20 (0.430)	20/470	1.2	82.1%	intergenic (‑305/+16)	flhD/insB5	DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB
	?	NC_000913	1979279 =	0 (0.000)					intergenic (‑64/‑474)	insA5/uspC	IS1 family protein InsA/universal stress protein C

CGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTG‑ATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCGCTGCGTATATCGCTTGCTGATTACGTGCAGCTTTCCCTTCAGGCGGGATTCATACAGCGGCCAGCCATCCGTCATCCATATCACCACGTCAAAGGGTG  >  NC_000913/1978257‑1978750                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                          cGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATCAGCTGCCATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtata                                                                                                                                                                                                                                                       >  2:246392‑M1/1‑246 (MQ=255)                 tAAAAAATAATTCGCATCAGAATAGTTGCGATAAGCTGCACTAAGCCGAAACACCTTTTTGGTTTAATATGTCCTTACAACTAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGAACATACAACGGAGGGGGGCTGCGCTTTTAAGTAATGCGTGCTGCAGAACACACAAAACACTCACTTACTTAACATAAATGtataagtcatacttttgtttt                                                                                                                                                                                                                                      >  2:475432‑M1/1‑230 (MQ=255)                      aataatTAGCCTTAGAATAGTTGAGATAAGCTGCAATAAGCAGAACAACCTTTTTGGTTTAATATGTCCTTACAAATCGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTAAATAATTCGTGATGCAGATCAAACAAAACAATCAATTACTTAACATAAATGtataattcatacttttgttttgggtg                                                                                                                                                                                                                                 >  2:69670‑M1/1‑225 (MQ=255)                                         gTTGAGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGGCCTTACAAATAGAACTGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACATCGGCGGGGTGCTGCGATTTTCAATAATGCGTGCTGAAGAACATACAAAACACTAAATTACTTAACATCAATGaataagttatccttttgttttgggtgtaattcaatctgttaaca                                                                                                                                                                                                               >  2:122860‑M1/1‑206 (MQ=255)                                                   gCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgct                                                                                                                                                                                                    <  1:103627‑M1/251‑56 (MQ=255)                                                                gAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagc                                                                                                                                                                                        >  1:431963‑M1/1‑183 (MQ=255)                                                                 aaCCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGCGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagca                                                                                                                                                                                       >  1:450066‑M1/1‑182 (MQ=255)                                                                                                    gAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgtgatgttgcg                                                                                                                                                   <  1:198768‑M1/251‑105 (MQ=255)                                                                                                     aaaTGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGAGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgc                                                                                                                                                  >  2:472904‑M1/1‑146 (MQ=255)                                                                                                                      taactaaGATTTTTCCTAAATCGACGCAACTGTACTCTGCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactc                                                                                                                                  <  2:113389‑M1/247‑122 (MQ=255)                                                                                                                        cctAAGATTTGTCCTAAATCGACGCAACTGTACGCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcacc                                                                                                                               <  2:320580‑M1/250‑125 (MQ=255)                                                                                                                                                aaacTTTACTCGTAACTACACGCACAGACAACGGAGGGGGGCTGCGAATTGCAATAATGCGGGATGCAGATCACACAAAACACGCAATTACTTAACATAAATGtataagtcatacttttgtgttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacagcaataatcaaaatgggatggagcgcacaggcaaaataactcaccgtaaataagcagctgctataaata                                                                                                       <  2:257063‑M1/250‑149 (MQ=255)                                                                                                                                                              aCTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctgctataaataatcactttcatgca                                                                                         <  2:404121‑M1/251‑163 (MQ=255)                                                                                                                                                                        caTACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctgctataaataatcactttcatgcaataccagata                                                                               <  1:293814‑M1/251‑173 (MQ=255)                                                                                                                                                                                   ggggggCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctgctataaataatcactttcatgcaataccagataagctattttta                                                                    <  1:49‑M1/251‑184 (MQ=255)                                                                                                                                                                                                   cAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgcta                                                                                                                                                                                              >  1:330516‑M1/1‑52 (MQ=255)                                                                                                                                                                                                   cAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgcta                                                                                                                                                                                              <  2:330516‑M1/113‑62 (MQ=255)                                                                                                                                                                                                                            cacaacaacgacgatatcaacatgctGGGTACTGACTCCAACTTATTG‑CTAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGCCAGCGCCTTACGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTAAGGTTATGCCGCTCAATTCGCTGCGTATATCGCTTGCTGATTACGTGCAGCTTTACCTTCAGGCGGGTTTCCTACAGCGGCCAGACATCCGTc                           >  2:25360/26‑250 (MQ=11)                                                                                                                                                                                                                              caacaacgacgatatcaacatgctGGGTAATGACTCCAACTTATTG‑ATAGTGTTTTATGTTCAGTTAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCGCTGCGTATATCGCTTGCTGATTACGTGCAGCTTTCCCTTCAGGCGGGATTCATACAGCGGCCAGCCATCCGTCATc                        >  1:275959/24‑251 (MQ=11)                                                                                                                                                                                                                              aaCACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctgctataaataatcactttcatgcaataccagataagctatttttaaacagacacttaccgcacaacaaactaattaaatacaaagaa                          >  1:100513‑M1/1‑25 (MQ=255)                                                                                                                                                                                                                               aacaacgacgatatcaacatgctGGGTAATGACTCCAACTTATTG‑ATAGTGTTTTATGTTCAGATAAGGCCCGATGACTGTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCGCTGCGTATATCGCTTGCTGATTACGTGCATCTTTCCCTTCAGGCGGGATTCATACAGCGGCCAGCCATCCGTCATcc                       <  1:285346/229‑1 (MQ=11)                                                                                                                                                                                                                                  cTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctgctataaataatcactttcatgcaataccagataagctatttttaaacagacacttaccgcacaacaaactaattaaatacaaagaaaggc                      >  2:499899‑M1/1‑21 (MQ=255)                                                                                                                                                                                                                                  aacgacgatatcaacatgctGGGTAATGACTCCAACTTATTG‑ATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCGCTGCGTCTATCGCTTGCTGATTACGTGCAGCTTTCCCTTCAGGCGGGATTCATACAGCGGCCAGCCATCCGTCCTCCat                     >  2:286041/20‑250 (MQ=11)                                                                                                                                                                                                                                     gacgatatcaacatgctGGGTAATGACTCCAACTTATTG‑ATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCGCTGCGTATATCGCTTGCTGATTACGTGCAGCTTTCCCTTCAGGCGGGATTCATACAGCGGCCAGCCATCCGTCATCCATATc                  >  1:14809/17‑250 (MQ=2)                                                                                                                                                                                                                                           ttAACATAAATGaataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaatcatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctgctataaataatcactttcatgcaataccagataagctatttttaaacagacacttaccgcacaacaaactaattaactacaaagaaaggcaacaatcacc            >  1:500337‑M1/1‑12 (MQ=255)                                                                                                                                                                                                                                              aacatgctGGGTACTGACTCCAACTTATTG‑ATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCGCTGCGTATATCGCTTGCTGATTACGTGCAGCTTTCCCTTCAGGCGGGATTCATACAGCGGCCAGCCATCCGTCATCCATATCACCACGTCa         >  1:97369/8‑250 (MQ=11)                                                                                                                                                                                                                                               acatgctGGGTAATGACTCCAACTTATTG‑ATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCGCTGCGTATATCGCTTGCTGATTACGTGCAGCTTTCCCTTCAGGCGGGATTCATACAGCGGCCAGCCATCCGTCATCCATATCACCACGTCaa        >  1:262540/7‑250 (MQ=11)                                                                                                                                                                                                                                                   cgtGGGTAATTACTCTAACGTATTTTATCGTGGTTTATGTGCAGATAATGCCCTATGACTTTGTCATGTAGCTCCACCGATTCTGAGAACGACAGCGTCCTCCGTCCCAGCCGTGCCCGGTGCTGCCTCAGATTCAGGTTATGCCGCTCGATGCGCTGCGTATAACGCTTGCTGATTACGTTCAGCTTTCCCTTCAGGCGGGATTAATACAGCGGCCGGCCATTCTTCATCCATATCACCACGTCaaat      <  2:324201/247‑2 (MQ=11)                                                                                                                                                                                                                                                     tGGGTAATGACTCCAACTTATTG‑ATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGTTCAATTCGCTGCGTATATCGCTTGCTGATTACGTGCAGCTTTCCCTTCAGGCGGGATTCATACAGCGGCCAGCCATCCGTCATCCATATCACCACGTCAAAGGGTg  >  1:427348/1‑250 (MQ=11)                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                          CGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTG‑ATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCGCTGCGTATATCGCTTGCTGATTACGTGCAGCTTTCCCTTCAGGCGGGATTCATACAGCGGCCAGCCATCCGTCATCCATATCACCACGTCAAAGGGTG  >  NC_000913/1978257‑1978750

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ 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.