Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	1,226,985	IS2 (+) +5 bp	intergenic (+17/+82)	ycgJ → / ← pliG	PF05666 family protein YcgJ/inhibitor of g‑type lysozyme

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1226985 =	1 (0.030)	34 (0.940)	31/486	0.2	97.1%	intergenic (+17/+86)	ycgJ/pliG	PF05666 family protein YcgJ/inhibitor of g‑type lysozyme
	?	NC_000913	1467910 =	NA (NA)					noncoding (1331/1331 nt)	IS2	repeat region
*	?	NC_000913	= 1226989	1 (0.030)	27 (0.750)	23/484	0.5	96.4%	intergenic (+21/+82)	ycgJ/pliG	PF05666 family protein YcgJ/inhibitor of g‑type lysozyme
	?	NC_000913	= 1469240	NA (NA)					noncoding (1/1331 nt)	IS2	repeat region

GAAATAACTGGCTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGGAACAGGCTTCAGTGAAATAGCGAATATCCTGGGTTCAAAACCCGGAACGATCTTCACTATGT  >  NC_000913/1469008‑1469478                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                               gaAATAACTGGCTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGCTTCAGTGGGCCAGTCTAAACCCCAGAacttacttt                                                                                                                                                                                                                              >  2:161632/1‑250 (MQ=25)     tAACAGGCTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAAAAATTACGATCGTTTCCTGTGTGGTACGCCGGCTGCGATTCTCCGGCAATAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATAACTTATTTAAGTGATCTTGGATGTCTGGAGATTGAGGGGGCCAGTCTACACCCAAGAACTTACTAATGCt                                                                                                                                                                                                                          >  2:246106/1‑251 (MQ=11)               gcggttactccATGTTGCCTGGCAGCGAGGGAGGTCCTCGTCGCCGGGTAAAAGCGCTGCTGAACAATTGCGATCATTTCCTGTGAGGTACGCCGTCTGCTTTTCTCCGGCCCTAAGACATCAATTAGCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGAGTATCATTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAACCCCCAGAACTTTCATATGCTGATTCCGGTg                                                                                                                                                                                                                <  2:179463/242‑1 (MQ=11)                 tgctACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCg                                                                                                                                                                                                              >  1:396175/1‑251 (MQ=255)                  gctATACCATTTTGCCGGGAAACGAGGGAGACCGTCATCCTCGGTTCAAAGCTCTGCTGAACAATTGCTATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCg                                                                                                                                                                                                              <  1:413314/250‑1 (MQ=255)                       cccATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAAtt                                                                                                                                                                                                        <  1:160733/250‑1 (MQ=255)                         cATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGt                                                                                                                                                                                                      >  1:323885/1‑251 (MQ=255)                                        cGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTg                                                                                                                                                                                       <  1:270431/251‑1 (MQ=255)                                                   gTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTGTCCTGTGTTGTACGCCGTCTGCGGTTCTCCGGCCCTAAGACATCAATCATCTGTTCTACAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAATTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAAtt                                                                                                                                                                            <  1:290760/251‑1 (MQ=255)                                                          cctgTTCAAAGCTCTTCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTGGTCTGGAGATTCAGGGTTCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAAc                                                                                                                                                                     <  1:27510/248‑1 (MQ=255)                                                            ggTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGc                                                                                                                                                                   >  1:327208/1‑251 (MQ=255)                                                                cAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAAc                                                                                                                                                                <  1:401499/250‑1 (MQ=255)                                                                     ctctGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTAt                                                                                                                                                          >  1:81220/1‑251 (MQ=255)                                                                       ctgctgAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTGAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAactta                                                                                                                                                                                                                                  >  1:17124/1‑177 (MQ=37)                                                                        tgctgAACAATCTCGATCTTGTCCTGTGTGGTACGCCGTCGGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTAtgt                                                                                                                                                        <  1:195083/250‑1 (MQ=255)                                                                                   tGCGATCGTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCCATCATCTGTGCTCCAAGGACTAGTCTAAAAACTAGTATTAAGACTATCACTGATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGTCAGTCTAAACACCAGAACGGACTGATGCTGAATCCGGTGCTAAAACTTTTAATAAAGGTACTTGGATATTCAATTGGGCAACGCAACAGTTATGAGAGAACATgga                                                                                                                                             <  2:45818/250‑2 (MQ=17)                                                                                           ttgccTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCgg                                                                                                                                      <  1:415761/246‑1 (MQ=255)                                                                                            gttcTGTGGGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTAGTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTGAATTGGTTAACGCAACAGTAATGTGAAAACATGGTGTTGCGGAg                                                                                                                                    <  2:25669/247‑1 (MQ=21)                                                                                              ccTGTGTGGTACGCCGTCTGCGTTTCTCCGGACCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGtt                                                                                                                                 <  2:100693/251‑1 (MQ=255)                                                                                                  tgtgGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGtttttt                                                                                                                             >  1:102496/1‑251 (MQ=255)                                                                                                        aCGCCGCCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGATCTCCAATGACTAATCTAAAAACTAGTATTAAGACTATCACTTATGTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTGTTTTGAATga                                                                                                                       <  2:102496/251‑1 (MQ=255)                                                                                                                 gagTTTCTCCGGCCATAAGAAATCAATCATCTGTTCTCCAATGACTAGTCTACAAACTAGTATTAAGACTATCACTTATTTAAATGATATTGGTTGACTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGATGAGAAAATTGTTAATAAAGGTACTAGTAGTTTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGaaaa                                                                                                               >  2:454191/3‑248 (MQ=38)                                                                                                                                                 gTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGa                                                                               <  1:210406/250‑1 (MQ=255)                                                                                                                                                                     aaaaCTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACATCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACTGAACAgg                                                          <  2:87968/251‑1 (MQ=255)                                                                                                                                                                                 aaGACTATCACTTATTTAAGGGATAGTGTTTGTCTGGCGATTCAGGGGGCCAGTCTAAACCACAGAACTTATTTATGATGATTAAGGTGCGAAAATTGTTAATACAGGTACTTGTAGATTCAGATGGTCAACGCAACAGATATGTGAAAACATGGGGGTGCGGAGGTGTTTTGAATGAGCAGAAAATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGGAACAGGCTTCAGTGAAAt                                              >  2:33129/1‑251 (MQ=18)                                                                                                                                                                                       aTCACTTAGTTAAGTGATAATGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAATTTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGGAACAGGCTTCAGTGAAATAGCg                                          <  1:87716/249‑1 (MQ=255)                                                                                                                                                                                         caattacttAAGTGATATTGGTTGTCTGGAGATTCAGCGGGCCAGTCTTAACACCAGAACTTACTTATGCTGATTCCGGAGCGAAAATTGTTAATAAATGTATTTGTAGATTCAATTTGTCAACGCAACAGTTATGTGAAAACATTGGGTTGCGGATGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAAAGGAACAGGCTTCAGTGAAATAGCGAata                                      <  2:349501/244‑1 (MQ=18)                                                                                                                                                                                                    gTGATATTGGGTGTGGGGAGATTTAGGGTTCCAGTCAAATCCCCAAAACGTCATGATGGTTATTCCGGTTCTAACATTGTTAATAAAGGTACTTATAGACTCAATTGGTAAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGGTTGTTGAAGGATATGAACATGTACAGCAGAGGAAAAAGCCTGTGTTTTTAAACTATGGAAGAGCGGAACACGCTTCAGTGAGCTAGCGattcccgtgtgttca                           <  2:220932/251‑15 (MQ=2)                                                                                                                                                                                                           tGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGGAACAGGCTTCAGTGAAATAGCGAATATCCTGGGTTCAAAAccc                     <  1:395688/250‑1 (MQ=255)                                                                                                                                                                                                                 tCTGGAGAGTCAGGGGGCAAATCTAACCACCAGCACTTACTTCTGCTGGTTCCGGTGCGAAAATTGTTAATTAAGGTACTGGTAGAGTCACATGGGCAACGCAGAAGTTATGTGAAAACATGGAGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGCGGACACAGCATATGTTTTTGTACTATAGACGAACGAATCAGGATTAAGTAAACTAGCGACTATCCTGGCGTCAAAACCCGGAACg               >  2:50497/1‑250 (MQ=12)                                                                                                                                                                                                                    ggAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTTAACTATGGAAGAACGGAACAGGCTTCAGTGAAATAGCGAATATCCTGGGTTCAAAACCCGGAACGa              <  1:246972/248‑1 (MQ=255)                                                                                                                                                                                                                             gggggCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGGAACAGGCTTCAGTGAAATAGCGAATATCCTGGGTTCAAAACCCGGAACGATCTTCACTATGt  <  1:295317/251‑1 (MQ=255)                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                               GAAATAACTGGCTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAAACCCCAGAACTTACTTATGCTGATTCCGGTGCGAAAATTGTTAATAAAGGTACTTGTAGATTCAATTGGTCAACGCAACAGTTATGTGAAAACATGGGGTTGCGGAGGTTTTTTGAATGAGACGAACATTTACAGCAGAGGAAAAAGCCTCTGTTTTTGAACTATGGAAGAACGGAACAGGCTTCAGTGAAATAGCGAATATCCTGGGTTCAAAACCCGGAACGATCTTCACTATGT  >  NC_000913/1469008‑1469478

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 29 ≤ 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.