New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AM260479	2807997 =	12 (0.470)	3 (0.130)	3/194	2.1	20.1%	coding (964/2850 nt)	kdpD1	Osmosensitive K+ channel histidine kinase
	?	AM260479	2808050 =	13 (0.560)					coding (911/2850 nt)	kdpD1	Osmosensitive K+ channel histidine kinase

CCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGCACCACCTGCGCAGCATCGCTGCCGTGGCCGACA  >  AM260479/2807938‑2808169                                                                                                                 |                                                                                                                        ccgcACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGcgcg                                                                                                    >  1:667456/1‑134 (MQ=255)      caTAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCAcc                                                                                               <  2:667456/134‑1 (MQ=255)                  ccgccgCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGt                                                                                                              <  1:208962/107‑1 (MQ=255)                  ccgccgCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGt                                                                                                              >  2:208962/1‑107 (MQ=255)                                          ccAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGc                                                           >  2:211545/1‑134 (MQ=255)                                                              cccagcgcgagcagctcgaccaggccatgcggttggccgaggcgctgggcgTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCt                                       <  1:708930‑M2/83‑1 (MQ=255)                                                              CCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCAGGCCAGCCGGCGCGCGCt                                       >  1:211545‑M1/1‑134 (MQ=255)                                                                       agcagctcgaccaggccatgcggttggccgaggcgctgggcgTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGcaccac                              >  1:1006706‑M2/43‑134 (MQ=255)                                                                           ccAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCg                                                                                                                       <  2:994998/41‑1 (MQ=255)                                                                           ccAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCg                                                                                                                       >  1:994998/1‑41 (MQ=255)                                                                                        cTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGCACCACCTGCGCAGCATCGCTGc             >  2:1018392/1‑134 (MQ=255)                                                                                              gAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGgcg                                             >  1:690476/1‑96 (MQ=255)                                                                                              gAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGgcg                                             <  2:690476/96‑1 (MQ=255)                                                                                              gAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGca                                  <  2:227793/107‑1 (MQ=255)                                                                                              gAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGca                                  >  1:227793/1‑107 (MQ=255)                                                                                                ggccgaggcgctgggcgTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGCACCACCTGCGCAGCATCGCTGCCGTGGcc      <  2:1006706‑M2/116‑1 (MQ=255)                                                                                                     tCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGCACCACCTGCGCAGCATCGCTGCCGTGGCCGaca  >  2:1016709/1‑132 (MQ=255)                                                                                                         gctgggcgTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGCACCACCTGCGCAGCATCGCTGCCGTGGcc      >  1:955373‑M2/9‑124 (MQ=255)                                                                                                         gctgggcgTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGCACCACCTGCGCAGCATCGCTGCCGTGGcc      <  2:955373‑M2/116‑1 (MQ=255)                                                                                                          ctgggcgTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGCACCACCTGCGCAGCATCGCTGCCGTGGcc      >  1:829269‑M2/8‑123 (MQ=255)                                                                                                          ctgggcgTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGCACCACCTGCGCAGCATCGCTGCCGTGGcc      <  2:829269‑M2/116‑1 (MQ=255)                                                                                                                 |                                                                                                                        CCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGCCCGGCCAGCCGGCGCGCGCTGCGCACCACCTGCGCAGCATCGCTGCCGTGGCCGACA  >  AM260479/2807938‑2808169

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ 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.