New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	1724040 =	17 (1.050)	6 (0.390)	6/238	1.1	27.9%	coding (1920/2013 nt)	ydhK	putative efflux protein (PET) component of YdhJK efflux pump
	?	NC_000913_3_pae_pgi	1724062 =	15 (0.980)					coding (1942/2013 nt)	ydhK	putative efflux protein (PET) component of YdhJK efflux pump

AACTGTATTTCACTGTTGCGGGGAGTGATGAGTGAGCGTGGCGTTCAGCAAAAATCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTCACCGCCACCGCCCAGCGGTTTAGGTTGATCGGACATATTATC  >  NC_000913_3_pae_pgi/1723921‑1724205                                                                                                                                              |                                                                                                                                                cgctgggcggtggcggtgaacgctatgcctgtggtgtaattaagtaattaagaggccagcgtaccttgcggtggtgcttgctcaagttgcgaaagcgagcagtacagccgccagacaattgccgccagctcacgggcggcaa                                                                                                                                                 <  2:199884‑M2/1‑1 (MQ=255) cgctgggcggtggcggtgaacgctatgcctgtggtgtaattaagtaattaagaggccagcgtaccttgcggtggtgcttgctcaagttgcgaaagcgagcagtacagccgccagacaattgccgccagctcacgggcggcaa                                                                                                                                                 >  1:199884‑M2/142‑142 (MQ=255) aaCTGTATTTCACTGTTGCGGGGAGTGATGAGTGAGCGTGGCGTTCAGCAAAAATCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTgg                                                                                                                                         <  1:19735/150‑1 (MQ=255)    tGTATTTCACTGTTGCGGGGAGTGATGAGTGAGCGTGGCGTTCAGCAAAAATCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTggcgg                                                                                                                                      >  1:62156/1‑150 (MQ=255)         ttCACTGTTGCGGGGAGTGATGAGTGAGCGTGGCGTTCAGCAAAAATCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTa                                                                                                                                 <  4:63853/150‑1 (MQ=255)               ggtgaacgctatgcctgtggtgtaattaagtaattaagaggccagcgtaccttgcggtggtgcttgctcaagttgcgaaagcgagcagtacagccgccagacaatTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGc                                                                                                                             <  1:56511‑M1/43‑1 (MQ=255)               ggtgaacgctatgcctgtggtgtaattaagtaattaagaggccagcgtaccttgcggtggtgcttgctcaagttgcgaaagcgagcagtacagccgccagacaatTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGc                                                                                                                             >  2:56511‑M1/106‑148 (MQ=255)                 tgaacgctatgcctgtggtgtaattaagtaattaagaggccagcgtaccttgcggtggtgcttgctcaagttgcgaaagcgagcagtacagccgccagacaatTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGc                                                                                                                         >  1:310‑M1/104‑150 (MQ=255)                       gAGTGATGAGTGAGCGTGGCGTTCAGCAAAAATCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGc                                                                                                                   >  4:28346/1‑150 (MQ=255)                       gAGTGATGAGTGAGCGTGGCGTTCAGCAAAAATCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGc                                                                                                                   >  4:28311/1‑150 (MQ=255)                               agtgagCGTGGCGTTCAGCAAAAATCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGag                                                                                                           <  1:1993/150‑1 (MQ=255)                                   agCGTGGCGTTCGGCAAAAATCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGagcaag                                                                                                       >  4:289/1‑150 (MQ=255)                                                gCAAAAATCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAgg                                                                                          >  2:31952/1‑150 (MQ=255)                                                       tCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTg                                                                                   <  3:48487/150‑1 (MQ=255)                                                                                   aGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAg                                                       >  4:37141/1‑150 (MQ=255)                                                                                     cGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGc                                                     <  3:28311/150‑1 (MQ=255)                                                                                     cGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGc                                                     <  3:28346/150‑1 (MQ=255)                                                                                               gcgagcagtacagccgccagacaattgccgccagctcacgggcggcaATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTca                                           >  1:310‑M2/48‑150 (MQ=255)                                                                                                   gcagtacagccgccagacaattgccgccagctcacgggcggcaATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTcacc                                         <  1:56511‑M2/105‑1 (MQ=255)                                                                                                   gcagtacagccgccagacaattgccgccagctcacgggcggcaATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTcacc                                         >  2:56511‑M2/44‑148 (MQ=255)                                                                                                               tcatcaACCTGCCGCCGGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTCACCGCCACCGCCCAGCg                           >  3:98740/1‑150 (MQ=255)                                                                                                                      ccTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTCACCGCCACCGCCCAGCGGTTTAgg                    <  1:31952/150‑1 (MQ=255)                                                                                                                      ccTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTCACCGCCACCGCCCAGCGGTTTAgg                    <  4:89803/150‑1 (MQ=255)                                                                                                                       tTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTCACCGCCACCGCCCAGCg                           <  2:199884‑M1/141‑1 (MQ=255)                                                                                                                       tTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTCACCGCCACCGCCCAGCg                           >  1:199884‑M1/2‑142 (MQ=255)                                                                                                                          ccgccagctcacgggcggcaATTGTCTGGCGGCTGTACTGCTCGCTCTCGCAACCTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTCACCGCCACCGCCCAGCGGCTTAGGTTGa                >  1:148114‑M2/21‑150 (MQ=255)                                                                                                                                        gcggcgATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTCACCGCCACCGCCCAGCGGTTTAGGTTGATCGGACATATTATc  <  2:155746‑M2/144‑1 (MQ=255)                                                                                                                                              |                                                                                                                                                AACTGTATTTCACTGTTGCGGGGAGTGATGAGTGAGCGTGGCGTTCAGCAAAAATCACTGGCGGCCACACTTGAAGAATTACAGCGGATTTGCGACAGCCTTGCCCGTCATCATCAACCTGCCGCCCGTGAGCTGGCGGCAATTGTCTGGCGGCTGTACTGCTCGCTTTCGCAACTTGAGCAAGCACCACCGCAAGGTACGCTGGCCTCTTAATTACTTAATTACACCACAGGCATAGCGTTCACCGCCACCGCCCAGCGGTTTAGGTTGATCGGACATATTATC  >  NC_000913_3_pae_pgi/1723921‑1724205

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.