New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 2310782	22 (0.570)	4 (0.110)	4/308	NT	18.8%	coding (2574/2850 nt)	rcsC	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN
	?	CP009273	= 2311055	13 (0.340)					coding (2301/2850 nt)	rcsC	hybrid sensory kinase in two‑component regulatory system with RcsB and YojN

TTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCCACACTGTGTACCCACTCCCCTGGCGCTTTCTCCAGCGGAATACCAATATGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCTGCCCTTCGTATGTTGTAACGACGATGCCGCTGCGCTGCAAACTGGTTTCCAGGAACTGACAGAGCGACGCATTGCGGACCGCCAGCCAGCAGCGTTTACCACTCAACCCTTCCACGCCTTTTTTCTGCGGGTACTGAGCGCCGTACAACGGAATACGCAC  >  CP009273/2310792‑2311300                                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                      ttCGCTGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTCTCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCCACACTGTGTACCCACTCCCCTGGCGCTTTCTCCAGCGCAATACCAATATGGCGACGACAGAAGGt                                                                                                                                                                                                                                            <  1:422503/275‑1 (MQ=255)                                                                                                          cTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCCACACTGTGTACCCACTCCCCTGGCGCTTTCTCCAGCGGAATACCAATATGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCTGCCCTTCGTATGTTGTAACGCCGATGCcgct                                                                                                                                   >  1:73423/1‑275 (MQ=255)                                                                                                                                                aTCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCCACACTGTGTACCCACTCCCCTGGCGCTTTCTCCAGCGGAATACCAATATGGCGAcgatgcgcttaatgtacttagcaagaatcatattgatatcgtgcttagcgacgtcaacatgccaaatatggatggttaccgcttgacgcaacgcattcgtcagttgggactgacgttgccggtaatcggagtaactgctaatgcgttggctgaa                                                                                             <  1:193258‑M2/275‑155 (MQ=255)                                                                                                                                                   gtcgCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGACCAGCCACACTGTGTACCCACTCCCCTGGCGCTTTCTCCAGCGGAATACCAATATGGCGAcgatgcgcttaatgtacttagcaagaatcatattgatatcgtgcttagcgacgtcaacatgcca                                                                                                                                                                                       <  1:409607‑M2/182‑65 (MQ=255)                                                                                                                                                       ctctCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGACCAGCCACACTGTGTACCCACTCCCCTGGCGCTTTCTCCAGCGGAATACCAATATGGCGAcgatgcgcttaatgtacttagcaagaatcatattgatatcgtgcttagcgacgtcaacatgccaaata                                                                                                                                                                                   >  2:409600‑M2/1‑114 (MQ=255)                                                                                                                                                         ctcCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCCACACTGTGTACCCACTCCCCTGGCGCTTTCTCCAGCGGAATACCAATATGGCGACGACAGAAGGTCACTACCGCCCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCTGCTCTCCTTATGTCGTAACGACGATGCCGCAGCGCTCCAACCCGGTTCCAATGAACGGACAGATCGACgactgccca                                                                                     >  2:692389/1‑266 (MQ=255)                                                                                                                                                                           aataCGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCCACACTGTGTACCCACTCCCCTGGCGCTTTCTCCAGCGGAATACCAATATGGNGACGACAGAAGGTCACTACAGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCTGCCCTTCGTATGTTGTAACGACGATGCCGCTGCGCTGCAAACTGGTTTCCAGGAACTGACAGAGCGACGCATTGCGGACCGCCAGCCAGCAGCGtt                                                                  <  1:558022/275‑1 (MQ=255)                                                                                                                                                                                      accctgccgGGAGCTCATGCGGAGCAGCCACCCGGGGTACCCACTCCCCTGGCGCTTTCTCCAGCGGAATACAAATATGGCGAcgatgcgcttaatgtacttagcaagaatcatattgatatcgtgcttagcgacgtcaacatgccaaatatggatggttaccgcttgacgcaacgcattcgtcagttgggactgacgttgccggtaatcggagtaactgctaatgcgttggctgaagagaagcagcggtgtctggagtccggtatggacagctg                                                       >  2:193255‑M2/5‑83 (MQ=255)                                                                                                                                                                                               gTAGCTCATGCGGAGCAGCCACACTGTGTACCCACTCCCCTGGCGCTTTCTCCAGCGGAATACCAATATGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCTGCCCTTCGTATGTTGTAACGACGATGCCGCTGCGCTGCAAACTGGTTTCCAGGAACTGACAGAGCGACGCATTGCGGACCGCCAGCCAGCAGCGTTTACCACTCAACCCTTCCACg                                              >  1:269687/1‑275 (MQ=255)                                                                                                                                                                                                                                   ccccTGTCGCTTTCTCCATCCGAATTCCAATATGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTCCTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCNGCCCTTCGTATGATGTAACGACGATGCCGCTGCGCTGCAAACTGGTTTCCAGGAACTGACAGAGCGACGCATTGCGGACCGCCAGCCAGCAGCGTTTACCACTCAACCCTTCCACGCCTTTTTTCTGCGGGTACTGAGCGCCGTACAACGGa          <  1:596102/275‑1 (MQ=255)                                                                                                                                                                                                                                     ccTGGCGCTTTCTCCAGCGGAATACCAATATGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCTGCCCTTCGTATGTTGTAACGACGATGCCGCTGCGCTGCAAACTGGTTTCCAGGAACTGACAGAGCGACGCATTGCGGACCGCCAGCCAGCAGCGttt                                                                 >  1:441938/1‑218 (MQ=255)                                                                                                                                                                                                                                         gcgcTTTCTCCAGCGGAATACCAATATGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCTGCCCTTCGTATGTTGTAACGACGATGCCGCTGCGCTGCAAACTGGTTTCCAGGAACTGACAGAGCGACGCATTGCGGACCGCCAGCCAGCAGCGTTTACCa                                                             <  2:441931/218‑1 (MQ=255)                                                                                                                                                                                                                                            cTTTCTCCAGCGGAATACCAATATGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGCGTCGGTTCCTGCCCTTCGTATGTTGTAACGACGATGCCGCTGCGCTGCAAACTGGTTTCCAGGAACTGACAGAGCGACGCATTGCGGACCGCCAGCCCGCAGCGTTTACCACTCAACACTTCCACGCCTTTTTGCTGCGTGCACTGAGCGCCGTCCAACGGACTACGccc  >  2:220380/1‑272 (MQ=255)                                                                                                                                                                                                                                                        aaagatgcctctGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCTGCCCTTCGTATGTTGTAACGACGATGCCGCTGCGCTGCAAACTGGTTTCCAGGAACTGACAGAGCGACGCATTGCGGACCGCCAGCCAGCAGCGTTTACCACTCAACCCTTCCACGCCTTTTTTCTGCGGGTACTGAGCGCCGTACAACGGa          >  1:180544/12‑254 (MQ=255)                                                                                                                                                                                                                                                         aaTACCAATATGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCggg                                                                                                                                                                             >  1:458347/1‑90 (MQ=255)                                                                                                                                                                                                                                                            atgcctctGGCGACGAAAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCTGCCCTTCGTATGTTGTAACGACGATGCCGCTGCGCTGCAAACTGGTTTCCAGGAACTGACAGAGCGACGCATTGCGGACCGCCAGCCAGCAGCGTTTACCACTCAACCCTTCCACGCCTTTTTTCTGCGGGTACTGAGCGCCGTACAACGGAATAc      <  2:180541/247‑1 (MQ=255)                                                                                                                                                                                                                                                             ccAATATGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTc                                                                                                                                                                         <  2:458340/90‑1 (MQ=255)                                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                      TTCGCGGTTTTACATTGATAGCCCAACGATCCCAACTGATCTGCCAGCAAACGCCGGTTAATCGGATGATCATCCACGACCAGAATCATCATATCGTCATTATCGCTGACCGCTTTGTCCGTTGACGGCAGAGCGTTAGCAGGATCGTCGCTCTCCATCTCGATCAAATAAATACGCGCCAACAATGCCGGTAGCTCATGCGGAGCAGCCACACTGTGTACCCACTCCCCTGGCGCTTTCTCCAGCGGAATACCAATATGGCGACGACAGAAGGTCACTACCGCTCTGCCCTGCCATTTTTTACTCACTACCTCGTCAGTGATCAACACATCTTCGGGAGTCGGTTCCTGCCCTTCGTATGTTGTAACGACGATGCCGCTGCGCTGCAAACTGGTTTCCAGGAACTGACAGAGCGACGCATTGCGGACCGCCAGCCAGCAGCGTTTACCACTCAACCCTTCCACGCCTTTTTTCTGCGGGTACTGAGCGCCGTACAACGGAATACGCAC  >  CP009273/2310792‑2311300

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ 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.