New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	2460054 =	25 (1.440)	4 (0.240)	4/296	NT	18.9%	coding (31/1158 nt)	intS	CPS‑53 (KpLE1) prophage; putative prophage CPS‑53 integrase
	?	CP009273	2460141 =	10 (0.590)					coding (118/1158 nt)	intS	CPS‑53 (KpLE1) prophage; putative prophage CPS‑53 integrase

TTCGCTCCCATCCGTACCAGTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATCGATCCTGTAAAGGCGAAAAAGGCTTCGTCTAACAACAATTCCTTTAGTGCGATTTACAAGGAATGGTACGAGCACAAGAAGCAAGTATGGTCAGTAGGGTATGCAACTGAACTTGCCAAAATGTTTGACGACGACATTTTA  >  CP009273/2459871‑2460398                                                                                                                                                                                                                                                                               |                                                                                                                                                                                                                                                                  ttCGCTCCCATCCGTACCAGTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACAATACCGCCTTCTCGATGGAAATGGCCTGTACCTTAATTACCCTGTGTCAGGGAAAAAGGAATGGAAGCTTCGCTa                                                                                                                                                                                                                                                               >  1:271407/1‑275 (MQ=255)           tCCGTACCAGTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGa                                                                                                                                                                                                                                                      >  1:86628/1‑274 (MQ=255)                                                                    tcgtagttcctttCAGATCGTTTACACCCTCACTCCATGACGGGTAAAAAGTGAATAAAATAATTTTACCCACCGGATTTTTCCCAATGCTCACCGTTAAGCAGATTGAACCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCa                                                                                                                                                                                            <  2:86626/264‑1 (MQ=255)                                                                                                               gTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACtt                                                                                                                                                                                                       >  1:190106/1‑221 (MQ=255)                                                                                                                   aaaGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCa                                                                                                                                                                                                   <  2:190102/221‑1 (MQ=255)                                                                                                                       agaaagaaaTAANTTTACCCACAGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAACAAAGCCGAAAGAAAAACCATACCGTCTTCTCGATGTTAATGGCCTGTATCTTTATGTCACTGGGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGAGTGACGGTAAGGAGAAAATCCTGACAGTCGGAAAATATCCGCGTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATCGATc                                                                                                                                           <  2:251802/267‑1 (MQ=255)                                                                                                                                        cccACCGGATTTTTACCCATGCTCACCGATAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAACAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATNCGCTTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATc                                                                                                                                               >  1:251810/1‑252 (MQ=255)                                                                                                                                                                            aTTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATc                                                                                                                                                                                                                                      >  2:101876/1‑129 (MQ=255)                                                                                                                                                                             ttGAAGCATCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATTGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATCGATCCTGTAAAGGCGAAAAAGGCTTCGTCTAACAACAATTCCTTTAGTGCGATTTACAAg                                                                                   <  1:92503/275‑1 (MQ=255)                                                                                                                                                                                aaGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGa                                                                                                                                                                                                                                  <  1:101878/129‑1 (MQ=255)                                                                                                                                                                                                       tttccctgacacagggacataaaggtacaggccattaccatcgagaaggcggtatggtttttctttcggcttCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCa                                                                                                                                                                                            >  1:68039‑M2/73‑144 (MQ=255)                                                                                                                                                                                                           cctgacacagggacataaaggtacaggccattaccatcgagaaggcggtatggtttttctttcggcttCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCAAggg                                                                                                                                                                                        <  2:68037‑M2/76‑1 (MQ=255)                                                                                                                                                                                                                                         ttaccatcgagaaggcggtatggtttttctttcggcttCGCTACAAGATTGACg                                                                                                                                                                                                                                                    >  2:332698‑M2/39‑54 (MQ=255)                                                                                                                                                                                                                                             catcgagaaggcggtatggtttttctttcggcttCGCTACAAGATTGACGGTaa                                                                                                                                                                                                                                                <  1:332710‑M2/20‑1 (MQ=255)                                                                                                                                                                                                                                                               aaaGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATCGATCCTGTAAAGGCGAAAAAGGCTTCGTCTAACAACAATTCCTTTAGTGCGATTTACAAGGAATGGTACGAGCACAAAAAGCAAGAATGGTCAGTAGGGTATGCAACTGAACTTGCCAAAATGTTTGACGACGACttttga  >  2:135333/1‑272 (MQ=255)                                                                                                                                                                                                                                                                               |                                                                                                                                                                                                                                                                  TTCGCTCCCATCCGTACCAGTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATCGATCCTGTAAAGGCGAAAAAGGCTTCGTCTAACAACAATTCCTTTAGTGCGATTTACAAGGAATGGTACGAGCACAAGAAGCAAGTATGGTCAGTAGGGTATGCAACTGAACTTGCCAAAATGTTTGACGACGACATTTTA  >  CP009273/2459871‑2460398

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 33 ≤ 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.