New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1979271 =	0 (0.000)	25 (0.490)	25/482	0.7	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

AGCGGATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGT‑AATCATCATCTGCGGGTCTATATTTTTCCTTTACATACGCCACCGCAATATT  >  NC_000913/2102706‑2103191                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                      aGCGGATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACa                                                                                                                                                                                                                                              <  1:141097/251‑1 (MQ=33)                         ccAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGaaa                                                                                                                                                                                                                      <  1:240514/251‑1 (MQ=255)                             cctgggggTAAAACGGCTCGATGCCTGTCACCATGTTTTGCCATTGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTGGTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGGTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAACCATGATCTCATATCAGGGACTGGTTCGCCCCTTCCTTAATCCCTAACATAAATTACACAATTAAATCAGAAAGca                                                                                                                                                                                                                   <  2:526556/246‑1 (MQ=14)                                tGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCATAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCGCATATCAGGGACTGGGTCGCACCTTCCTTAATCCCTAACATAAATGACACAAGAAAATCAGAAATCACAg                                                                                                                                                                                                                <  2:436148/250‑1 (MQ=255)                                                 aTGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGaat                                                                                                                                                                                              <  1:52848/251‑1 (MQ=255)                                                                                tCTGCTCCATGCGGGACAAGAAAATCTCTTTTATGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGCTGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGa                                                                                                                                                                >  1:188094/1‑250 (MQ=255)                                                                                          gCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATaa                                                                                                                                                      <  1:351654/250‑1 (MQ=255)                                                                                              gACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTTAATTCTCTTTCGGCGAAGGTAAGTTGATGACTCATGATGATCCCTGTTCTATTGCGCCAGATGACAAACATGATCGCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACGCAATAAAATCATAAACCACAGGAAATTTTCTTACTGAATAATCATGTAAAGATTTCGCGTTATCTCGCAACAGGCATAATGTAc                                                                                                                                                 <  2:312257/251‑1 (MQ=18)                                                                                                           ctTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCAt                                                                                                                                        <  1:19851/247‑1 (MQ=255)                                                                                                                           gcgcTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACatat                                                                                                                    <  1:186347/251‑1 (MQ=255)                                                                                                                             gcTTACTGCTGAATTCACTGTCGCCGAAGGTAAGTTGATGACTCATGCTGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAACTTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATAttt                                                                                                                  >  1:324156/1‑251 (MQ=255)                                                                                                                                        aatgcACTGTCGGCTAAGGTAAGTTGATGACTCATGATTAACCCTGTTCTATGGCTGCAGATGACAAACATGAGCTTATATCAGGGACTTGTACGCATCTTCCTTAATCCCTAACTTAAATTACACAATAAAATCAGCAAGCACGGCTTATTTTCTTACCGAATAATCATGTAAAGATTTCGCTTCATCTCGGTACAGGCAGAATGTCCTATTAGCGCAACGCTTACTGTCGACATATTTAATATATGTCa                                                                                                       <  1:336279/247‑1 (MQ=255)                                                                                                                                            cACTGTCGTCGAAGGTAAAATGATGACTCATTATGAACCCTGTTCTATGGCTCCAGATTACAAACATGATCTAATATCAGGGACTTGTTCGCACCGTCCTTAATCCCTAACACAAAAGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATAAAGTAAATATTTCGCTGCTGCCCGGAACAGGCATAATGTACTAAAAGCCTAACGCTTACTTTCGACATATTTAATATATGTCAGCaa                                                                                                   <  2:324156/251‑1 (MQ=255)                                                                                                                                                     cGAAGGTAAGTTGATGACTCATGATGAACCCAGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGATCGCACCTTCCTTAATCCCTAACATAAATGACCCAATAACATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAg                                                                                                                                           >  1:332849/1‑202 (MQ=255)                                                                                                                                                                           gatgaACCCTGATCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGAAAATCATCATGCTTCATGATGATATCGGGAtt                                                                     >  2:382833/1‑250 (MQ=255)                                                                                                                                                                            atgaACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTc                                                                    >  1:316486/1‑250 (MQ=255)                                                                                                                                                                            atgaACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCa                                                                   <  2:366367/251‑1 (MQ=255)                                                                                                                                                                               aaCCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGGAAATATTTCGCGTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCt                                                                                                                                  <  2:540465/185‑1 (MQ=255)                                                                                                                                                                               aaCCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATACCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCt                                                                                                                                  >  1:540465/1‑185 (MQ=255)                                                                                                                                                                                                                              aCTTGTTCGCACCTTCCTTGATCCCTAACATAAATAACACAAAAAAAACAGTAAGCACAGGAAATTTTCTTACGGAATAATCATGGAAAGATTTCGCTTCGACTCGGAACAGGCATAATGTACTAAAAGCATAACGCAAACTTGCGACGGATTTAATGAATGTGAGCAAAACGTTATGCTTCAGGATGATGGTGGGATTGTAAATCAAAA‑GTGAATCATCAACTGCGGGTCTATATTTGTCCTTGACATAc                <  1:65125/251‑1 (MQ=255)                                                                                                                                                                                                                                             ccttAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGT‑AATCATCATCTGCGGGTCTATATTTTTCCTTTACATACGCCACCGCAAtatt  >  1:64373/1‑250 (MQ=255)                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                      AGCGGATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAAAACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAATCCCTAACATAAATGACACAATAAAATCAGAAAGCACAGGAAATTTTCTTACGGAATAATCATGTAAAGATTTCGCTTCATCTCGGAACAGGCATAATGTACTAAAAGCATAACGCTTACTTTCGACATATTTAATATATGTCAGCAAATCATCATGCTTCATGATGATATCGGGATTCAAAAACAAAATGT‑AATCATCATCTGCGGGTCTATATTTTTCCTTTACATACGCCACCGCAATATT  >  NC_000913/2102706‑2103191

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ 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.