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

CGGACAATGAAGCCCCGCCATCGGCCCAGCGCGCCGGCGTGCGGCCGATCAAGACCTTGGTCAGATTGTGCCGCCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGC  >  AM260479/2807865‑2808112                                                                                                                                     |                                                                                                                    cGGACAATGAAGCCCCGCCATCGGCCCAGCGCGCCGGCGTGCGGCCGATCAAGACCTTGGTCAGATTGTGCCGCCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTAcgcgcg                                                                                                                    >  1:41424/1‑134 (MQ=255)      aaTGAAGCCCCGCCATCGGCCCAGCGCGCCGGCGTGCGGCCGATCAAGACCTTGGTCAGATTGTGCCGCCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAg                                                                                                               <  2:465370/134‑1 (MQ=255)                 ggccacggcagcgatgctgcgcaggtggtgcgcagcgcgcgccggctggccgggcagctcgattgcgactgccatgtggtgacggtgtcggtgccgcgcctggcacccgtgcccgaCGCCCAgc                                                                                                              <  2:955373‑M1/8‑1 (MQ=255)                 ggccacggcagcgatgctgcgcaggtggtgcgcagcgcgcgccggctggccgggcagctcgattgcgactgccatgtggtgacggtgtcggtgccgcgcctggcacccgtgcccgaCGCCCAgc                                                                                                              >  1:955373‑M1/117‑124 (MQ=255)                 ggccacggcagcgatgctgcgcaggtggtgcgcagcgcgcgccggctggccgggcagctcgattgcgactgccatgtggtgacggtgtcggtgccgcgcctggcacccgtgcccgaCGCCCAg                                                                                                               <  2:829269‑M1/7‑1 (MQ=255)                 ggccacggcagcgatgctgcgcaggtggtgcgcagcgcgcgccggctggccgggcagctcgattgcgactgccatgtggtgacggtgtcggtgccgcgcctggcacccgtgcccgaCGCCCAg                                                                                                               >  1:829269‑M1/117‑123 (MQ=255)                 ggccacggcagcgatgctgcgcaggtggtgcgcagcgcgcgccggctggccgggcagctcgattgcgactgccatgtggtgacggtgtcggtgccgcgcctggcacccgtgcccgaCGCCCAGCGCCTCGGcc                                                                                                     <  2:1006706‑M1/17‑1 (MQ=255)                      cGGCCCAGCGCGCCGGCGTGCGGCCGATCAAGACCTTGGTCAGATTGTGCCGCCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCg                                                                                                >  2:397810/1‑133 (MQ=255)                                       gTGCGGCCGATCAAGACCTTGGTCAGATTGTGCCGCCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAg                                                                                                               >  2:336658/1‑101 (MQ=255)                                       gTGCGGCCGATCAAGACCTTGGTCAGATTGTGCCGCCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAg                                                                                                               <  1:336658/101‑1 (MQ=255)                                         gtggtgcgcagcgcgcgccggctggccgggcagctcgattgcgactgccatgtggtgacggtgtcggtgccgcgcctggcacccgtgcccgaCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAgctgct                                                                            >  1:1006706‑M1/93‑134 (MQ=255)                                          cGGCCGATCAAGACCTTGGTCAGATTGTGCCGCCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTc                                                                           <  2:41424/134‑1 (MQ=255)                                          cGGCCGATCAAGACCTTGGTCAGATTGTGCCGCCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTc                                                                           <  1:397810/134‑1 (MQ=255)                                                  agcgcgcgccggctggccgggcagctcgattgcgactgccatgtggtgacggtgtcggtgccgcgcctggcacccgtgcccgaCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTggg                                                                   <  1:708930‑M1/51‑1 (MQ=255)                                                                          ccgcACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGcgcg                                           >  1:667456/1‑134 (MQ=255)                                                                               caTAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCAcc                                      <  2:667456/134‑1 (MQ=255)                                                                                           ccgccgCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGt                                                     >  2:208962/1‑107 (MQ=255)                                                                                           ccgccgCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGt                                                     <  1:208962/107‑1 (MQ=255)                                                                                                                   ccAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGc  >  2:211545/1‑134 (MQ=255)                                                                                                                                     |                                                                                                                    CGGACAATGAAGCCCCGCCATCGGCCCAGCGCGCCGGCGTGCGGCCGATCAAGACCTTGGTCAGATTGTGCCGCCGCACATAGCCGGCCACCGCCGCCACCATGTCGCTGCCGGCCAGCGTTTCGGTACGCGCGCCCAGCGCCTCGGCCAACCGCATGGCCTGGTCGAGCTGCTCGCGCTGGGCGTCGGGCACGGGTGCCAGGCGCGGCACCGACACCGTCACCACATGGCAGTCGCAATCGAGCTGC  >  AM260479/2807865‑2808112

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 38 ≤ 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.