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

ATATAACGAGCCCCTCCTAAGGGCTAATTGCAGGTTCGATTCCTGCAGGGGACACCATTTATCAGTTCGCTCCCATCCGTACCAGTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATCGATCCTGTAAAGGCGAAAAAGGCTTCGTCTAACAACAATTCCTTTAGTGCGATTTACAAG  >  CP009273/2459806‑2460317                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                                        atatAACGAGCCCCTCCTAAGGGCTAATTGCAGGTTCGATTCCTGCAAGGGACACCATTTATCAGTTCGCTCCCATCCGTACCAGTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTTGCTTCAGATCGATGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAAATTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACAATACCACCt                                                                                                                                                                                                                                                >  1:318552/1‑274 (MQ=255)       cGAGCACCTACTAAGGGCTAATTGCAGGTTCGATTCCTGAAGGGGACACCATTTATCAGTTCGCTCCCATCCGTACCAGTACGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCTCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGa                                                                                                                                                                                                                                          <  1:69766/274‑1 (MQ=255)                                                      acCATTTATCAGTTCGCTCCCATCCGTACCAGTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTACAGCAGCAAAGCCGAAAGAAAAACCATACCGCAATCTAGATGGAAATGGCATGTACATATAAGACCCAGAGTCAGGGAAAAAggaaag                                                                                                                                                                                          >  2:92501/1‑271 (MQ=255)                                                                  ttCGCTCCCATCCGTACCAGTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACAATACCGCCTTCTCGATGGAAATGGCCTGTACCTTAATTACCCTGTGTCAGGGAAAAAGGAATGGAAGCTTCGCTa                                                                                                                                                                              >  1:271407/1‑275 (MQ=255)                                                                            tCCGTACCAGTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGa                                                                                                                                                                     >  1:86628/1‑274 (MQ=255)                                                                                     gTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCCAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGc                                                                                                                                                                                                                                >  1:120721/1‑206 (MQ=255)                                                                                                                                     tcgtagttcctttCAGATCGTTTACACCCTCACTCCATGACGGGTAAAAAGTGAATAAAATAATTTTACCCACCGGATTTTTCCCAATGCTCACCGTTAAGCAGATTGAACCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCa                                                                                                           <  2:86626/264‑1 (MQ=255)                                                                                                                                           ttCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCaaa                                                                                                                                                                                                                                                                        >  1:117619/1‑112 (MQ=255)                                                                                                                                               cTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCg                                                                                                                                                                                                                                                                    <  2:117617/112‑1 (MQ=255)                                                                                                                                                                             cccttgcctcctgcaaagtcataagcggatattttccgacggtcaggattttctccttaccgtcaatcttgtagcgAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAgg                                                                                                                                                                                                      <  2:68037‑M1/68‑1 (MQ=255)                                                                                                                                                                                gTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAAc                                                                                                                                                                                                                                                          >  2:226425/1‑89 (MQ=255)                                                                                                                                                                                gTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACtt                                                                                                                      >  1:190106/1‑221 (MQ=255)                                                                                                                                                                                 tgcctcctgcaaagtcataagcggatattttccgacggtcaggattttctccttaccgtcaatcttgtagcgAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGaaa                                                                                                                                                                                                  >  1:68039‑M1/73‑144 (MQ=255)                                                                                                                                                                                  aaaaaGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAAATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATg                                                                                                                                                                                                                                        >  2:187653/1‑105 (MQ=255)                                                                                                                                                                                    aaaGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCa                                                                                                                  <  2:190102/221‑1 (MQ=255)                                                                                                                                                                                    aaaGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGAAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATa                                                                                                                                                                                                                                                      <  1:226431/89‑1 (MQ=255)                                                                                                                                                                                      aGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTaa                                                                                                                                                                                                                                    <  1:187657/105‑1 (MQ=255)                                                                                                                                                                                        agaaagaaaTAANTTTACCCACAGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAACAAAGCCGAAAGAAAAACCATACCGTCTTCTCGATGTTAATGGCCTGTATCTTTATGTCACTGGGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGAGTGACGGTAAGGAGAAAATCCTGACAGTCGGAAAATATCCGCGTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATCGATc                                                          <  2:251802/267‑1 (MQ=255)                                                                                                                                                                                                         cccACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTtc                                                                                                                                                                                                                                              >  2:308442/1‑76 (MQ=255)                                                                                                                                                                                                         cccACCGGATTTTTACCCATGCTCACCGATAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAACAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATNCGCTTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATc                                                              >  1:251810/1‑252 (MQ=255)                                                                                                                                                                                                             ccGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGa                                                                                                                                                                                                                                          <  1:308453/76‑1 (MQ=255)                                                                                                                                                                                                                           aTGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAg                                                                                                                                                                                                       >  1:160282/1‑97 (MQ=255)                                                                                                                                                                                                                           aTGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAg                                                                                                                                                                                                       >  2:192180/1‑97 (MQ=255)                                                                                                                                                                                                                               tCACCGTTAAGCAGATTGAAGCAGCAAAGCCTAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGaa                                                                                                                                                                                                   <  2:160278/97‑1 (MQ=255)                                                                                                                                                                                                                               tCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGaa                                                                                                                                                                                                   <  1:192184/97‑1 (MQ=255)                                                                                                                                                                                                                                     ttaccgtcaatcttgtagcgAAGCCGAAAGAAAAACCATACCGCCTTCTCGATg                                                                                                                                                                                                                                        <  1:332710‑M1/34‑1 (MQ=255)                                                                                                                                                                                                                                         cgtcaatcttgtagcgAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTaa                                                                                                                                                                                                                                    >  2:332698‑M1/17‑54 (MQ=255)                                                                                                                                                                                                                                             aTTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATc                                                                                                                                                     >  2:101876/1‑129 (MQ=255)                                                                                                                                                                                                                                              ttGAAGCATCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATTGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATCGATCCTGTAAAGGCGAAAAAGGCTTCGTCTAACAACAATTCCTTTAGTGCGATTTACAAg  <  1:92503/275‑1 (MQ=255)                                                                                                                                                                                                                                                 aaGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGa                                                                                                                                                 <  1:101878/129‑1 (MQ=255)                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                                        ATATAACGAGCCCCTCCTAAGGGCTAATTGCAGGTTCGATTCCTGCAGGGGACACCATTTATCAGTTCGCTCCCATCCGTACCAGTCCGCAAAATCCCCTGAATATCAAGCATTCCGTAGATTTACAGTTCGTCATGGTTCGCTTCAGATCGTTGACAGCCGCACTCCATGACGGGTAAAAAGTGGATAAAATAATTTTACCCACCGGATTTTTACCCATGCTCACCGTTAAGCAGATTGAAGCAGCAAAGCCGAAAGAAAAACCATACCGCCTTCTCGATGGTAATGGCCTGTACCTTTATGTCCCTGTGTCAGGGAAAAAGGTATGGCAGCTTCGCTACAAGATTGACGGTAAGGAGAAAATCCTGACCGTCGGAAAATATCCGCTTATGACTTTGCAGGAGGCAAGGGATAAAGCATGGACTGCGAGGAAAGACATCTCGGTTGGCATCGATCCTGTAAAGGCGAAAAAGGCTTCGTCTAACAACAATTCCTTTAGTGCGATTTACAAG  >  CP009273/2459806‑2460317

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 34 ≤ 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.