New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3584195	NA (NA)	20 (0.550)	19/482	0.6	46.5%	noncoding (768/768 nt)	IS1	repeat region
	?	NC_000913	= 3807527	23 (0.630)					coding (572/1035 nt)	waaQ	lipopolysaccharide core heptosyltransferase 3

ACCCTTTGACGTGGTGATATGGATGACGGATGGCTGGCCGCTGTATGAATCCCGCCTGAAGGGAAAGCTGCACGTAATCAGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCATTGTAAACCATGCCATCTTTTTAGAGATTACCAGCAGAAAATTCCTTGTTCGAAATTTAGCAGTGCAAGCTATGGAAAAACTTACAACGGAACTACACTCCTTAAGTG  >  NC_000913/3583949‑3584440                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                      aCCCTTTGACGTGGTGATATGGATGACGGATGGCTGGCCGCTGTATGAATCCCGCCTGAAGGGAAAGCTGCACGTAATCAGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGAc                                                                                                                                                                                                                                                    >  1:345724/1‑250 (MQ=31)   cctctGACGTGGTGATATGGCTGACGGATGGCTGGCAGTTGTATGAATCCCGCCTGAAGGAAAAGCTGCACGTATTCAGCGAGCGATATACGCAGCGAATTGAGCGGCATAACATGGGTCTGAGACAGCTACTGGCACGGCTGGGACGGAAGGCGCGGTCGTGCTCAAAAGCGGTGGAGCTGCAAGACAAAGCCATTGGGCATTAGCTAAACAGAAAACACTATCAATAAGTTGGAGTCATTACCgctttt                                                                                                                                                                                                                                                 <  1:390725/247‑6 (MQ=11)      tggccGTGGGGAAATGGAGGACGGATGGCTGGCCGCTGTATGAATCCCGCCTGAAGGGAAAGCTGCACGAAATCAGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTAGCAATAAGTTGGAGTCATTACCGACATTaa                                                                                                                                                                                                                                               <  2:186466/246‑1 (MQ=255)                             gatggatgGCCGTTGTAGTAATCCCGCCTGAAGGGAAAGCTGCACGTAGGCAGCAAGCGATATACGCAGCGAATTGAGCGGCATAAGCTGAATCTGAGGGAGTACCTGGCACGGCTGGGACGGAAGTCGCTGGCGTGCTCAAAAGCGGTGGAGTTGCATGGCAAAGGCATGGGGCATTATGTTAACATTAAACATTTTTAATAAGGTGGAGTCTTTTCCGACTTTAAAAGTAACgtttttttaaggagaga                                                                                                                                                                                                                       <  2:186552/251‑12 (MQ=2)                              aTGGCGGGCCGCGGTATGAGTCCCGTCGGAAGGGAAAGCTGCACGTAAGCAGCAAGCGCTTAACGCAGCGAATTGGGCTGCATATCCTGAATCTTAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCGCAAAATCGGTGGAGCTTCATGGCAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAATTGGGGGTCATTTCTGACATTAAAAGTAACGGTTTTGAAAGTAGAGat                                                                                                                                                                                                                      <  2:236187/251‑1 (MQ=11)                               tggctggcCGCTGTATGAATCCCGCCTGAAGGGAAAGCTGCACGTAATCAGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTTCATGACAAAGTCATCGGGCATTATCTGAACATAAAACTCTATCAATAAGTTTGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGat                                                                                                                                                                                                                      <  1:259998/250‑1 (MQ=255)                                          tGTATGAATCCCGCCTGAAGGGAAAGCTGCACGTAATCAGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGcac                                                                                                                                                                                                           >  1:46714/1‑250 (MQ=255)                                                      gCCTGAAGGGAAAGCTGCACGTAATCAGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGAAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTc                                                                                                                                                                                              >  1:352846/1‑251 (MQ=255)                                                            aGGGAAGGCTGCACGTAATCAGCAAGCGATATCAGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCTTTCTCAAAATCGGTGGAGCTGCATGACAAAGGCATCGGGCATTATCTGAACTGAAAACACTATCAATATGTTGGAGTCATTACCGACATGAAAAGTAACGGTTTTGAAATGAGAGATAATATTGGCACAGAAAATATAGGCAGTTCg                                                                                                                                                                                        <  2:245326/251‑1 (MQ=14)                                                                         cGTAATCAGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTtct                                                                                                                                                                           <  1:273210/251‑1 (MQ=255)                                                                               cAGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGTAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCa                                                                                                                                                                      <  1:48770/250‑1 (MQ=255)                                                                                                 gCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATgg                                                                                                                                                   <  1:65040/251‑1 (MQ=255)                                                                                                               aTAACCTGAAGCTGAGGCAGCACCTGGCATGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCataa                                                                                                                                     <  2:315919/251‑1 (MQ=255)                                                                                                                                            cGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCATTGTaa                                                                                                        <  2:311819/251‑1 (MQ=255)                                                                                                                                                 ggaacgtaaGTCGCTGTCGTTCGCAAAATGGGTGGAGCTGCATGACGAAGGCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACAATAAAAGTAACTTTTTTGAATATAGAGATAATATTGGCACAGAAAATATATTTAGTTGGTTTAATGATTTCTCTGCATTCTGAGACGAACTCATGGACAGTTGGTCAGAATATGCAAAAGTAAACAAAAATCATTGAAAACCAt                                                                                                   <  2:43343/244‑1 (MQ=18)                                                                                                                                                     cGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCATTGTAATCCATGCCa                                                                                               <  2:345724/251‑1 (MQ=255)                                                                                                                                                                 tCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCATTGTAAACCATGCCATCTTTTTag                                                                                      >  1:121986/1‑248 (MQ=255)                                                                                                                                                                                       tGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCATTGTAAACCATGCCATCTTTTTAGAGATTACCAGCAGAAAATTCCTTGt                                                             >  2:301588/1‑251 (MQ=255)                                                                                                                                                                                                        gggCATTATCTGAACATAAAACACTATCAAGAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCATTGTAAACCATGCCATCTTTTTAGAGATTACCAGCAGAAAATTCCTTGTTCGAAATTTAGCAGTGc                                            <  1:235875/251‑1 (MQ=255)                                                                                                                                                                                                                                             gcgTCATTACCGACATTAAAAGTAACTTTTTTGAACTTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCTTTGTAAACCATGCCATCTTTTTAGAGATTACCAGCAGAAAATTCCTTGTTCGAAATTTAGCAGTGCAAGCTATGGAAAAACTTACAACGGAACTACACTCCtt       >  2:221425/3‑251 (MQ=255)                                                                                                                                                                                                                                                  aTTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCATTGTAAACCATGCCATCTTTTTAGAGATTACCAGCAGAAAATTCCTTGTTCGAAATTTAGCAGTGCAAGCTATGGAAAAACTTACAACGGAACTACACTCCTTAAGTg  <  2:121986/251‑1 (MQ=255)                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                      ACCCTTTGACGTGGTGATATGGATGACGGATGGCTGGCCGCTGTATGAATCCCGCCTGAAGGGAAAGCTGCACGTAATCAGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCATTGTAAACCATGCCATCTTTTTAGAGATTACCAGCAGAAAATTCCTTGTTCGAAATTTAGCAGTGCAAGCTATGGAAAAACTTACAACGGAACTACACTCCTTAAGTG  >  NC_000913/3583949‑3584440

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ 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.