New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 1343562	16 (1.280)	4 (0.350)	4/236	1.0	20.2%	intergenic (‑234/+35)	osmB/yciT	osmotically and stress inducible lipoprotein/global regulator of transcription; DeoR family
	?	NC_000913_3_pae_tpiA	= 1343568	17 (1.500)					intergenic (‑240/+29)	osmB/yciT	osmotically and stress inducible lipoprotein/global regulator of transcription; DeoR family

GCTGATAATAATTTTATATCTTGAGAGTGTTAATAACAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGATGCATCAGATCGCTGGCGCGTATTTTCGAATCGGTAATCACGCGATTGAATCGCTCAACGGGACCGATGGAGT  >  NC_000913_3_pae_tpiA/1343473‑1343712                                                                                                |                                                                                                                                                 gCTGATAATAATTTTATATCTTGAGAGTGTTAATAACAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGa                                                                                            <  2:120092/150‑1 (MQ=255)         taatTTTATATCTTGAGAGTGTTAATAACAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACtg                                                                                    >  3:6703/1‑150 (MQ=255)         taatTTTATATCTTGAGAGTGTTAATAACAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACtg                                                                                    >  3:6658/1‑150 (MQ=255)                atatCTTGAGAGTGTTAATAACAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTgcaaatcatccgctctaagatgattcctggttgataattaagactatttacctgttattaacactctca                                                                             >  2:139680‑M2/1‑81 (MQ=255)                  atCTTGAGAGTGTTAATAACAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGa                                                                           <  1:15401/150‑1 (MQ=255)                   tCTTGAGAGTGTTAATAACAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGAt                                                                          >  4:63541/1‑150 (MQ=255)                       gagaGTGTTAATAACAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGATGCAt                                                                      <  4:56822/150‑1 (MQ=255)                                  taaCAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGATGCATCAGATCGCTgg                                                           >  2:32688/1‑150 (MQ=255)                                   aaCAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGATGCATCAGATCGCTGgc                                                          >  2:90603/1‑150 (MQ=255)                                                tCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGATGCATCAGATCGCTGGCGCGTATTTTCGaa                                             >  3:75312/1‑150 (MQ=255)                                                  ttAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGATGCATCAGATCGCTGGCGCGTATTTTCGAATc                                           >  4:63185/1‑150 (MQ=255)                                                   tAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGATGCATCAGATCGCTGGCGCGTATTTTCGAATCg                                          <  1:90603/150‑1 (MQ=255)                                                    aaTTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGATGCATCAGATCGCTGGCGCGTATTTTCGAATCgg                                         >  3:34083/1‑150 (MQ=255)                                                       tATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGt                                                                                              >  1:107083/1‑94 (MQ=255)                                                       tATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGt                                                                                              <  2:107083/94‑1 (MQ=255)                                                                         ttAGAGCGGATGATTTGCCAAACTgcaaatcatccgctctaagatgattcctggttgataattaagactatttacctgttattaacactctcaagatataaaattattatcagcgatataacaggaagtcattatcacctgcgtgatata                    <  4:81328‑M2/150‑127 (MQ=255)                                                                           agagCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGa                                                                                            <  3:34097/76‑1 (MQ=255)                                                                           agagCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGa                                                                                            >  4:34097/1‑76 (MQ=255)                                                                                ggATGATTTGCCAAACTgcaaatcatccgctctaagatgattcctggttgata                                                                                                              <  2:72754‑M2/53‑37 (MQ=255)                                                                                ggATGATTTGCCAAACTgcaaatcatccgctctaagatgattcctggttgata                                                                                                              >  1:72754‑M2/1‑17 (MQ=255)                                                                                           cAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGATGCATCAGATCGCTGGCGCGTATTTTCGAATCGGTAATCACGCGATTGAATCGCTCAACGGGACCGATGGAGt  <  4:75312/150‑1 (MQ=255)                                                                                                |                                                                                                                                                 GCTGATAATAATTTTATATCTTGAGAGTGTTAATAACAGGTAAATAGTCTTAATTATCAACCAGGAATCATCTTAGAGCGGATGATTTGCCAAACTGCAAATCATCCGTAGAGAAGGGAAATGGTTAAATGTCAACGACGTGAATGGTGAGTTTACTGTGCTCAAGATGCATCAGATCGCTGGCGCGTATTTTCGAATCGGTAATCACGCGATTGAATCGCTCAACGGGACCGATGGAGT  >  NC_000913_3_pae_tpiA/1343473‑1343712

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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.