New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1979271 =	0 (0.000)	13 (0.670)	9/278	0.6	100%	intergenic (‑56/‑482)	insA5/uspC	IS1 family protein InsA/universal stress protein C
	?	NC_000913	= 2102947	NA (NA)					pseudogene (443/446 nt)	wbbL	interrupted rhamnosyltransferase WbbL

CCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCTTTACATACGCCACC  >  NC_000913/2102724‑2103183                                                                                                                                                                                                                                |                                                                                                                                                                                                                                             ccATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACAATGTTTTGCCATGGCAGAGTCTGCTACATGCGGGACACGAAAATCTCTTTTATGGTCTGACGGCGCTTACTGCTGAATTCAATGTCGGCGAAGGTAAGTTGATGAATCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAAt                                                                                                                                                                                                                   >  1:265555/1‑251 (MQ=14)                             cGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGATCCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACgg                                                                                                                                                                                        <  1:454863/250‑1 (MQ=255)                                      ccaccaTGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGTAATCCCTAACATAAGTGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATg                                                                                                                                                                              <  1:287489/251‑1 (MQ=255)                                                        gCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCAtc                                                                                                                                                            >  1:9954/1‑251 (MQ=255)                                                                                   aaaTCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCGCGGAACAGTCATAATGTACTAAAAgn                                                                                                                                 <  1:406729/251‑2 (MQ=255)                                                                                                            nttACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATg                                                                                                                                                                                                                               >  1:308670/2‑132 (MQ=255)                                                                                                            cTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATg                                                                                                                                                                                                                               <  2:308670/132‑1 (MQ=255)                                                                                                                  gctgAATTCACTGTCGGCGACGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCATTAATCCCTAACATAAATGAAACAATAAAATCAGAACGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGc                                                                                                                                                                  >  1:355537/1‑187 (MQ=255)                                                                                                                  gctgAATTCACTGTCGGCGAAGTTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCNCACNTTCCNTANTTCCTAACATAAATGNCACAATAAAATCAGAAAGCACAGTAAATTTTCTTACGGAATAATNNTNNNANGATTTCGc                                                                                                                                                                  <  2:355537/187‑1 (MQ=21)                                                                                                                                            gTTGATGACTCATGATGAACCCTGTTCTATGGCTACAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCa                                                                                                                                                              >  1:400618/1‑165 (MQ=255)                                                                                                                                                     tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAANNGACACANNa                                                                                                                                                                                                                       >  2:19965/1‑99 (MQ=255)                                                                                                                                                     tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAgg                                                                                                                                                  <  1:19965/168‑1 (MQ=255)                                                                                                                                                      cATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACANTAANATCANAANGCACAGGAAATGTTCNTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCNNANNNTNCTAAAAGc                                                                                                                                 <  2:352710/184‑1 (MQ=255)                                                                                                                                                      cATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGc                                                                                                                                 >  1:352710/1‑184 (MQ=255)                                                                                                                                                                           gCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATc                                                                                                                                                                                                                                            <  1:460330/56‑1 (MQ=31)                                                                                                                                                                           gCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTCACATAAATGACACAATAAAATCAGAAAGCACAGGACATTTTCTTACGGAATAATCATGTACAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAACGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCCAATCATCATGCTTCa                                                                            >  1:343894/1‑216 (MQ=255)                                                                                                                                                                                aGANGNNAAACANGATNTCAGATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTNGCTNCATCNCGNAACAGGCATAATGTANTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCNNANNNTNATGCTTCa                                                                            <  2:343894/211‑1 (MQ=255)                                                                                                                                                                                 gATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAgg                                                                                                                                                  >  1:386379/1‑140 (MQ=255)                                                                                                                                                                                      cAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCggn                              <  1:132689/251‑2 (MQ=255)                                                                                                                                                                                                           gACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTAAGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGCTATATTTAATATATGTCAGCAAATCATCCTGCTTCATGATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCTTTACAt          >  1:493432/1‑250 (MQ=255)                                                                                                                                                                                                             cTTGTTNGNANCNTCCTTAATCCCTAACANAAATGACACAATAAAATCANNAAgn                                                                                                                                                                                                           >  2:478925/1‑54 (MQ=255)                                                                                                                                                                                                             cTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGc                                                                                                                                                                                                           <  1:478925/55‑1 (MQ=255)                                                                                                                                                                                                             cTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCgg                                                                                                                                                        >  1:32943/1‑106 (MQ=255)                                                                                                                                                                                                                gTTCGCACCTTCCATAATCCCTAACATAACTGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAGTCATGTAAAGATTTCGCATCCTATCGGAAACGGCATATTGAACTCAAAGCATAACGCTTACTTTCGACATCTTTAATATATGTCAGCAAATCATCATGCTTCATGATGCTATCGGGATTCAAAAACAAAATGTAATCATCCTCTGCGGGTCTATATTTTTCCTTTACATACGcc     >  1:361739/1‑250 (MQ=255)                                                                                                                                                                                                                  tCGCACCTTCCTTAATACCTAACCTAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCTTTACATACGCCAcc  >  1:185002/1‑251 (MQ=255)                                                                                                                                                                                                                   cGCACCTTCCTTAATCCCTAACATAAATGACACAATACAATCAGAAAGCACAGGAAATTTTCTTACGGACTAATCATATAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAACAGCATAACGCTTACTTTCGACATATTTATTATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAAc                                                     >  1:488112/1‑199 (MQ=255)                                                                                                                                                                                                                                |                                                                                                                                                                                                                                             CCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGTAATCATCATCTGCGGGTCTATATTTTTCCTTTACATACGCCACC  >  NC_000913/2102724‑2103183

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 18 ≤ 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.