New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1299498	0 (0.000)	19 (1.770)	14/280	0.0	100%	intergenic (+253/‑69)	ychE/insH21	MarC family putative inner membrane protein YchE/IS5 family transposase and trans‑activator
	?	NC_000913	= 1300693	NA (NA)					noncoding (1195/1195 nt)	IS5	repeat region

GAGCTGCCATGCTCCGTTTACTTCGTCATTATTTTTACTTTGTTCCCGCGCAGTTATCAAAAGCAAAAGGAATAGGTAAAAATATTCTTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTTGTCCCGCATGGAGCAGATTCTGCCATGGCAAAACATGGTGGAAGTCATCGAGCCGTTTTACCCCAAGGCTGGTAATG  >  NC_000913/1299264‑1299717                                                                                                                                                                                                                                           |                                                                                                                                                                                                                            nagCTGCCATGCTCCGTTTACTTCGTCATTATTTTTACTTTGTTCCCGCGCAGTTATCAAAAGCAAAAGGAATAGGTAAAAATATTCTTCTCAAATTACAGTTAGTTATAAGGATTTCATTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTACTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaata                                                                                                                                                                                                               >  1:223021‑M1/2‑235 (MQ=255)                                                  gcAGTTATCAAAAGCAAAAGGAATAGGTAAAAATATTCTGCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTTAAATGATATTATTAATGCCACTGCCGTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttg                                                                                                                                                            <  1:250404‑M1/251‑66 (MQ=255)                                                     gTTATCAAAAGCAAAAGGAATAGGTAAAAATATTCTTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggtgaaattcttctcggctgactcagtcatttcatttcttcatgtttgagc                                                                                                                                                         <  1:229322‑M1/251‑69 (MQ=255)                                                        aTCAAAAGCAAAAGGAATAGGTAAAAATATTCTTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCGAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagc                                                                                                                                                         <  1:257513‑M1/248‑69 (MQ=255)                                                                  aaagGAATAGGTAAAAATATTCTTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaattcttctaggctgactcagtcatttcatttcttcatgtttgagccgattttttctcc                                                                                                                                            <  1:12266‑M1/251‑82 (MQ=255)                                                                                          ctcAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGACTAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctat                                                                                                                    >  1:84854‑M1/1‑146 (MQ=255)                                                                                                     gttagttaTAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATACTCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTaagga                                                                                                                                                                                                                          >  1:153820/1‑138 (MQ=255)                                                                                                                                                          ccACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttcacc                                                                                                                                            <  1:113575‑M1/163‑82 (MQ=255)                                                                                                                                                                                  gaaganTCATTNANNTGATATTATTCATTCCACTNCCTTTGGTAGAGGAANGTGCNAAGGANGGNgn                                                                                                                                                                                                                    >  2:105238/1‑66 (MQ=255)                                                                                                                                                                                  gaagaaTAATTGAAATGAGATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaattctgctcggctgacgcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgc                                                                                                                                   <  1:105238‑M1/148‑91 (MQ=255)                                                                                                                                                                                     gaaTAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttagaccgtttcttcgccatttaaggcgttatccccagtttttagtgagatctctcccactgacgtatcatttggtccgcccgaaacaggt                         >  1:93037‑M1/1‑55 (MQ=255)                                                                                                                                                                                         aatTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttcgcccgtaaatgccttgaatcagcctatttagaccgtttcttcgccatttaaggcgttatccccaggttttagtgagatctctcccacttacgtatcatttggtccgcccgaaacaggttggc                     <  1:226066‑M1/251‑201 (MQ=255)                                                                                                                                                                                              aaaTGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgagtttttctcccgtaaatgccttgaatcagcctatttagaccgt                                                                                                           <  1:186825‑M1/160‑115 (MQ=255)                                                                                                                                                                                                            aTTCCACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttagaccgtttcttcgccatttaaggcgttatccccagtttttagtgagatctctcccactgacgtatcatttggtccgcccgaaacaggttggccagcgtgaataacatcgcc  <  1:12250‑M1/251‑220 (MQ=255)                                                                                                                                                                                                                cACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaa                                                                                                                                                                                                     >  1:16337‑M1/1‑28 (MQ=255)                                                                                                                                                                                                                cACTGCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaagaagcggggaaa                                                                                                                                                                                                     <  2:16337‑M1/52‑25 (MQ=255)                                                                                                                                                                                                                    gCCTTTGGTAGAGGAAAGTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttagnccgnnnnntcnnnnnnnnnn                                                                                           >  2:170054‑M1/1‑24 (MQ=255)                                                                                                                                                                                                                             agagGAAAGTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttagaccgtttcttcgccatttaaggcgttatccccagtttttagtgagatctctcccactgacgtatcatttggtccgcccgaaacaggttggcca                   >  1:116657‑M1/1‑15 (MQ=255)                                                                                                                                                                                                                                 naaagTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttagaccgtttcttcgccatttaaggcgttatccccagttt                                                                           >  1:51534‑M1/2‑11 (MQ=255)                                                                                                                                                                                                                                     gTGCTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtg                                                                                                                                                              <  1:78106‑M1/70‑64 (MQ=255)                                                                                                                                                                                                                                       gCTAAggaaggggcgaataagcggggaaattcttctcggctgactcagccatttcatttcttcatgtttgagccgattttttatgacgtacatgacttgactcagcctatttagaccgtttcttcgcc                                                                                                  >  1:260015‑M1/1‑5 (MQ=255)                                                                                                                                                                                                                                           |                                                                                                                                                                                                                            GAGCTGCCATGCTCCGTTTACTTCGTCATTATTTTTACTTTGTTCCCGCGCAGTTATCAAAAGCAAAAGGAATAGGTAAAAATATTCTTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTTGTCCCGCATGGAGCAGATTCTGCCATGGCAAAACATGGTGGAAGTCATCGAGCCGTTTTACCCCAAGGCTGGTAATG  >  NC_000913/1299264‑1299717

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ 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.