Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	568,268	IS1 (–) +9 bp	intergenic (+21/‑39)	renD → / → emrE	DLP12 prophage; protein RenD/multidrug/betaine/choline efflux transporter EmrE

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	19796 =	NA (NA)	30 (0.720)	29/282	0.4	96.6%	noncoding (768/768 nt)	IS1	repeat region
	?	NC_000913	= 568276	1 (0.030)					intergenic (+29/‑39)	renD/emrE	DLP12 prophage; protein RenD/multidrug/betaine/choline efflux transporter EmrE
*	?	NC_000913	= 258675	NA (NA)	42 (1.000)	35/284	0.2	97.5%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	568268 =	1 (0.030)					intergenic (+21/‑47)	renD/emrE	DLP12 prophage; protein RenD/multidrug/betaine/choline efflux transporter EmrE

CTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/258537‑258675 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTTTTACACGGTTATGGCC  >  NC_000913/568268‑568409                                                                                                                                                                                                                                                                                           CTGATGGCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACTCTAAATCATTAAGTTGGCAGCATCACCCAAA                                                                                                                                            <  2:95893/143‑1      GTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCGGAATCGGGACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTA                                                                                                                                       <  2:342763/143‑1      GTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTA                                                                                                                                       <  2:220301/143‑1           GCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTAga                                                                                                                                  >  1:734869/1‑141                GCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCT                                                                                                                             <  2:610466/143‑1                        CGTTACGCACCACCCCGTCAGTAGCTAAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTTGCGGCATCACCCCAACACGAGTACACTTCTCTCCcact                                                                                                                     >  2:82168/1‑139                        CGTTACGCACCACACCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAAACAGTAAGTTGGCAGCATCACCCACACTGTAGTACAATTCTCTCAAGat                                                                                                                     >  2:245493/1‑141                             CGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAAGCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAAC                                                                                                                <  1:298265/143‑1                                 CCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGCTTGAACAGGA                                                                                                            >  2:433421/1‑143                                   atCCCGTCAGTCGCTGAACAGGAGGGACAGCTGAGAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCCTACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAA                                                                                                          <  1:49673/141‑1                                                  GAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAAC                                                                                           >  1:230239/1‑143                                                  GAACAGGAGGGACAGCTGATAGAAACAGAAGCCACGGGAGCACCTCAAAAACACCATCATACCCTAAATCAAGACGTTGGCAGCATCCCCCAAACTGTGGTACAATTCTCTCCAGTTTGAACAGGACAGAATATGCTATGAAC                                                                                           >  1:329858/1‑143                                                        gacGGACAGCTGATAGAAACAGACTCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTCTGAACAGGAAAGAATATGCTATGAACCCTTAT                                                                                     <  2:408442/140‑1                                                                 CTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTT                                                                            >  2:22252/1‑143                                                                     TAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTG                                                                        <  1:769785/143‑1                                                                       GAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGT                                                                      >  1:39368/1‑143                                                                        AAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTG                                                                     >  2:93726/1‑143                                                                           CAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTAT                                                                                     <  1:418768/124‑1                                                                           CAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTAT                                                                                     >  2:418768/1‑124                                                                                GCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTT                                                             >  1:399397/1‑143                                                                                 CCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGATGGCGGCAGCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTG                                                            <  1:175974/143‑1                                                                                   ACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATAGTTATCTTGGTGGTGCCATACTTGCc                                                          >  1:527470/1‑142                                                                                       GAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCTGAGG                                                      >  2:765989/1‑143                                                                                            CCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCGGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATT                                                 >  1:747480/1‑143                                                                                            CCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATT                                                 <  1:655785/143‑1                                                                                              TCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGG                                               >  2:765280/1‑143                                                                                              TCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGCGCATTGG                                               >  1:325296/1‑143                                                                                                AAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGCGGTCATTGcgc                                             >  1:204756/1‑140                                                                                                AAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTA                                             >  1:423938/1‑143                                                                                                   AACGCCAGCATACACGAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAA                                          <  1:546034/143‑1                                                                                                        CATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACACCCTTA                                     >  1:239272/1‑143                                                                                                        CATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTA                                     <  1:104730/143‑1                                                                                                           CATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTAACACAATACTTGCAGAGGTCATTGGTACAACCATAATG                                  >  2:342167/1‑143                                                                                                            ATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCT                                                                             <  1:380449/99‑1                                                                                                            ATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCT                                                                             >  2:380449/1‑99                                                                                                                ACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGTAATACTTGCAGAGATCATTGGTACAACCTTAATGAAGTT                             >  2:46420/1‑143                                                                                                                                     CATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTTTTACACGGTT        >  2:142017/1‑143                                                                                                                                       TCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTTTTATACGGATAT      >  2:704862/1‑143                                                                                                                                       TCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGAAGAGTATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTTTTACACGGTTAT      >  2:349087/1‑143                                                                                                                                         ACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGATGTCATTGGTACAACCTTAATGAAGTTTTACGAAGGTTTTACACGGGTATGc    >  1:780539/1‑142                                                                                                                                          CCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCTGTAGGTTTTAAACGGTTATGGt   >  1:251684/1‑142                                                                                                                                           CCAAACTGTAGTACAATTCCCTCCATTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTTTTACACGGTTATGGCC  >  2:687336/1‑143                                                                                                                                                                                                                                                                                           CTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/258537‑258675 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTTTTACACGGTTATGGCC  >  NC_000913/568268‑568409

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.