New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1299498	0 (0.000)	54 (1.300)	31/120	0.0	100%	intergenic (+253/‑33)	ychE/insH21	putative inner membrane protein/IS5 transposase and trans‑activator
	?	NC_000913	1300698 =	0 (0.000)					intergenic (+151/‑484)	insH21/oppA	IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein

GCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGT  >  NC_000913/1299434‑1299561                                                                 |                                                                gCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                 <  1:583292‑M1/65‑1 (MQ=255) gCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                 >  1:54568‑M1/1‑65 (MQ=255) gCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                 >  1:343205‑M1/1‑65 (MQ=255) gCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                 <  1:1145170‑M1/65‑1 (MQ=255) gCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                 >  1:3328003‑M1/1‑65 (MQ=255) gCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                 >  1:2977065‑M1/1‑65 (MQ=255) gCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                 >  1:2670555‑M1/1‑65 (MQ=255) gCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                 >  1:1882659‑M1/1‑65 (MQ=255) gCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                 >  1:1456249‑M1/1‑65 (MQ=255)   ttGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAat                                                               <  1:3024606‑M1/65‑3 (MQ=255)    tGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAata                                                              <  1:1060645‑M1/65‑4 (MQ=255)     gCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataa                                                             <  1:2132984‑M1/65‑5 (MQ=255)      cTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataat                                                            <  1:224692‑M1/65‑6 (MQ=255)        gaagaaTAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataa                                                          <  1:1809678‑M1/65‑8 (MQ=255)            aataatTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaa                                                      >  1:3447795‑M1/1‑54 (MQ=255)            aataatTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaa                                                      >  1:2070297‑M1/1‑54 (MQ=255)             ataatTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaat                                                     >  1:2747719‑M1/1‑53 (MQ=255)                atTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgt                                                  <  1:3089153‑M1/65‑16 (MQ=255)                  tGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgtta                                                >  1:343029‑M1/1‑48 (MQ=255)                      aTGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaatt                                            <  1:1410760‑M1/65‑22 (MQ=255)                       tGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaatta                                           >  1:589599‑M1/1‑43 (MQ=255)                       tGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaatta                                           >  1:1123803‑M1/1‑43 (MQ=255)                          tattatTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattg                                        >  1:2711209‑M1/1‑40 (MQ=255)                           attattAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgt                                       <  1:364036‑M1/65‑27 (MQ=255)                           attattAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgt                                       <  1:1217601‑M1/65‑27 (MQ=255)                             tattaATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgc                                     <  1:553133‑M1/65‑29 (MQ=255)                              attaATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgca                                    <  1:1796177‑M1/65‑30 (MQ=255)                               ttaATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcat                                   >  1:2604716‑M1/1‑35 (MQ=255)                                taATTCCACTGCCTTTGGTAGGGGAAAGTGCTAAataataatcaattgttaaattattgtgcatt                                  <  1:1705911‑M1/65‑32 (MQ=255)                                taATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatt                                  <  1:2040177‑M1/65‑32 (MQ=255)                                taATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatt                                  <  1:530141‑M1/65‑32 (MQ=255)                                taATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatt                                  <  1:1804889‑M1/65‑32 (MQ=255)                                taATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatt                                  <  1:70779‑M1/65‑32 (MQ=255)                                  aTTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttc                                >  1:988082‑M1/1‑32 (MQ=255)                                  aTTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttc                                <  1:1720095‑M1/65‑34 (MQ=255)                                  aTTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttc                                >  1:2372793‑M1/1‑32 (MQ=255)                                  aTTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttc                                <  1:2151141‑M1/65‑34 (MQ=255)                                  aTTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttc                                <  1:2198417‑M1/65‑34 (MQ=255)                                  aTTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttc                                <  1:265362‑M1/65‑34 (MQ=255)                                    tCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcac                              >  1:3404613‑M1/1‑30 (MQ=255)                                      cACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcacta                            <  1:3472869‑M1/65‑38 (MQ=255)                                       aCTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactac                           >  1:117919‑M1/1‑27 (MQ=255)                                        cTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattgttgtgcatttcactact                          <  1:1051570‑M1/65‑40 (MQ=255)                                        cTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactact                          <  1:1603797‑M1/65‑40 (MQ=255)                                        cTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactact                          <  1:2083799‑M1/65‑40 (MQ=255)                                        cTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactact                          <  1:801544‑M1/65‑40 (MQ=255)                                        cTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactact                          <  1:3080947‑M1/65‑40 (MQ=255)                                           ccTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactgga                       <  1:2958223‑M1/65‑43 (MQ=255)                                            cTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaa                      >  1:983695‑M1/1‑22 (MQ=255)                                               tGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactg                   <  1:3122236‑M1/65‑47 (MQ=255)                                                 gTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgta                 >  1:1291752‑M1/1‑17 (MQ=255)                                                 gTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgta                 >  1:1809781‑M1/1‑17 (MQ=255)                                                  tAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaa                <  1:3299282‑M1/65‑50 (MQ=255)                                                  tAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaa                <  1:336868‑M1/65‑50 (MQ=255)                                                        aaaGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaa          >  1:785568‑M1/1‑10 (MQ=255)                                                        aaaGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaa          >  1:2182685‑M1/1‑10 (MQ=255)                                                        aaaGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaa          >  1:480270‑M1/1‑10 (MQ=255)                                                        aaaGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaa          >  1:2054511‑M1/1‑10 (MQ=255)                                                        aaaGTGCTAAataataatcaattgttaaattattgagcatttcactactggaactgtaatcagaa          >  1:3290628‑M1/1‑10 (MQ=255)                                                           gTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaag       <  1:3005871‑M1/65‑59 (MQ=255)                                                           gTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaag       <  1:284623‑M1/65‑59 (MQ=255)                                                             gCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagat     >  1:1066994‑M1/1‑5 (MQ=255)                                                             gCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagat     >  1:3234658‑M1/1‑5 (MQ=255)                                                               tAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatag   <  1:1959189‑M1/65‑63 (MQ=255)                                                                aaataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagataga  <  1:141383‑M1/65‑64 (MQ=255)                                                                 |                                                                GCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGT  >  NC_000913/1299434‑1299561

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ 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.