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

ATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTATTCCGTT  >  NC_000913/1467679‑1468139                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                       aTGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTc                                                                                                                                                                                                                    >  1:9937/1‑251 (MQ=255)           ggTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTg                                                                                                                                                                                                          >  1:73460/1‑251 (MQ=255)                        cgcACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                                                                                                                             >  1:173552/1‑251 (MQ=255)                           acaGGATATAGTTATACCAGCGTTATTGGCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATTCGACAATCAGCGGAGAATTCCCTCTGGGGTGTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCAt                                                                                                                                                                                          <  1:343024/251‑1 (MQ=255)                                          aCCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGcc                                                                                                                                                                           <  1:447236/251‑1 (MQ=255)                                           ccAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCg                                                                                                                                                                          >  1:312397/1‑251 (MQ=255)                                              gCGTTATTGTCGTTAGTTGTGAGTCGTCTGTATATCTGAAGGGAGATACGACAATCAGCGGAGAATACCCTCTGTGGTTTGCCGTGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTTACCCATTACAAGCCCGCTGCCGCAg                                                                                                                                                                       <  2:393304/251‑1 (MQ=39)                                                      gTCGTTAGTGGTGAGTCGTCGGTTTAGCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGGTTGCCGGGGTTATTCGGTTACAGGATAAAGCTTTGCTTGAAATTTGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGTCAATAACCCTG‑GATTTGCCCCTTTATTTCCATACATCTGTTATCTCTTAACCCATTACAATCCCTCTTCCGTAGATATTccc                                                                                                                                                               <  2:9937/251‑1 (MQ=255)                                                           tagtggccagccgtcgGTATATCTGAATGGAGATCCGACAATCAGCGGAGACTTCTCTCTGGAGGTTGCCAGGGTTAGTCGAGTACAGGATAACGCTTTGCTGGACATTGGCAGTGGCGCCGAGATAACAATGCCGGAGATTGTCA‑GTTTTGAACATCATGGGACAAAAAACCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCACCCTGCCGCAACTATTCCCGCGgc                                                                                                                                                          >  2:194096/12‑251 (MQ=19)                                                               ggtgAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcgagc                                                                                                                                                      <  1:360323/251‑1 (MQ=255)                                                                         cgGTATATCTGAATGTAGATACGACAAGCAGCTGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTTGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGATTCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCa                                                                                                                                             <  2:162284/250‑1 (MQ=255)                                                                             atatCTGAATGGAGATACGACACTCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAACGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACC‑GTTTTGAACGTCATGGTTCAAGAACCCTG‑GATTTGCCCCTATTTTTCCAGAATTCTGTTATCACTTAACCCCTTACAAGCCCGCTTCCGCAGTTATTCACGtagtgtgcgttaacccctcgc                                                                                                                                         >  2:297566/1‑230 (MQ=255)                                                                                   gAATGGAGATACGACAAGCAGCGGAGAATTCCCGCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCGATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGc                                                                                                                                  <  1:213194/251‑1 (MQ=255)                                                                                          gaTACGACTAACCGCGGAGAATTCCCTCTTTGGCTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTTTAAATTGGCAGTGGCGCTACGCTAACAATGCTGGATATGGTCACGTATT‑AACTTCATTGCACAAGAACCCGGTGCTTT‑TCTCTCTATTGCCAGACAGCTAGTATCTCTTGACCCATTTCAATCTCGCTGCCGCAGATATTCCCGTGGCGTTCGATACCCCAGCGTTCTATGTGGATGcc                                                                                                                           <  2:447294/251‑1 (MQ=255)                                                                                                 ccagcAGCGGATAATACGCTCTGGGGTTGTCCGGGGTTATTCGTGTACATGATAAAGCTTTGCTGGAAATTGGCAGAGGCGCTACGCTAACTATGCAGGATATTGACA‑GTTGTGAACATCATGGGACAAGAACCCTG‑TATTTGCCCCTATATTTCCAGACATCTGTTAGCACTTAACCCATTACAAGCCCGCTGCCGCATATATTCCCGTGGCTAGCGAAAACCCAGCGCACTATGCTGATTCCACTCggt                                                                                                                    <  2:194295/247‑3 (MQ=21)                                                                                                   aTCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTAAAGGATAAAGCTTTGCAGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGCCA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGCTATCACTTAACCAATTACAAGCCCGCTGCAGCAGATATTCCCGTGGCGACCGATAACCCACCGCACTATGCGGCTACCATTCTTtat                                                                                                                  >  2:26828/1‑251 (MQ=37)                                                                                                                 cccTCTGGGGTGTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑TATTTGCCCCTATATTTCCAGACATCTGTTATCACtt                                                                                                                                                                                                 <  2:179800/158‑1 (MQ=255)                                                                                                                       ggggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGc                                                                                               >  1:168725/1‑250 (MQ=255)                                                                                                                                     ttATTCGGGTACAGGGTAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTtgctgc                                                                                >  1:114106/1‑251 (MQ=255)                                                                                                                                      tATTCGGGTACAGGATAAAGCTTTGCTTGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑TATTTGCCCCTATATTTCCAGACATCTGTTAGCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCTCTATGCGGAGGCCATTCGTTATAATGCTCTAACGCCTCTGCAAGGTTCTTtgctgc                                                                                <  2:63729/250‑1 (MQ=255)                                                                                                                                                                   aaaTTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACt                                                  >  1:188943/1‑251 (MQ=255)                                                                                                                                                                    aaTTGGCAGTGGCACTACGCGAAAAATGCAGGATATTGATA‑GTTTTGAACATCATGTGACAAGAACCCTG‑GATTTGCCCCTATATTTCCATACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGTCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTg                                                 <  2:245053/251‑1 (MQ=17)                                                                                                                                                                             tGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGCCAAGAACCATG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAAATATTCCCGTGGCGAGCGCTAACCCAGCGAACTCTGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCCAGGATCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATCCTGATGTAGtac                                        >  2:161755/1‑249 (MQ=17)                                                                                                                                                                                 gctacgataACAATGCAGGATATTGACC‑GTTTTGAACATCATGAGACAAAAACCCTG‑GCTTTGCCCGTATATTTCCAGACATCTGTTATCACTTAACACATTACACGCCCGCTGCCGCCGATATTCCCGTGGCGAACGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGATCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTGACCCGTCTGGTTCGGTCATGATACTGATGTAGTCACGCt                                    >  2:54998/1‑251 (MQ=14)                                                                                                                                                                                   tacgctaACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCttt                                  >  1:159744/1‑251 (MQ=255)                                                                                                                                                                                                   gATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGc                  >  1:398665/1‑251 (MQ=255)                                                                                                                                                                                                     tatTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGctc                >  1:370311/1‑251 (MQ=255)                                                                                                                                                                                                      atTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGATGctct               >  1:135539/1‑251 (MQ=255)                                                                                                                                                                                                       ttGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGctctc              >  1:390084/1‑251 (MQ=255)                                                                                                                                                                                                            a‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTCTGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGCTGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCt          >  2:264714/1‑250 (MQ=255)                                                                                                                                                                                                                     aCATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTATTCCGtt  >  1:348158/1‑250 (MQ=38)                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                       ATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACA‑GTTTTGAACATCATGGGACAAGAACCCTG‑GATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTATTCCGTT  >  NC_000913/1467679‑1468139

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 31 ≤ 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.