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)	43 (0.850)	39/282	0.3	100%	noncoding (768/768 nt)	IS1	repeat region
	?	NC_000913	= 568276	0 (0.000)					intergenic (+29/‑39)	renD/emrE	DLP12 prophage; protein RenD/multidrug/betaine/choline efflux transporter EmrE
*	?	NC_000913	= 258675	NA (NA)	54 (1.060)	39/284	0.3	100%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	568268 =	0 (0.000)					intergenic (+21/‑47)	renD/emrE	DLP12 prophage; protein RenD/multidrug/betaine/choline efflux transporter EmrE

CGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/258535‑258675 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTTTTACACGGTTATGG  >  NC_000913/568268‑568407                                                                                                                                                                                                                                                                                           CGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCc                                                                                                                                            >  2:735438/1‑142    TGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTCAGTTGGCAGCCTCACCCAcgc                                                                                                                                         >  1:458099/1‑140        gcCCGGCGGTGCGGGTGCCGTGACGCACCACCCGGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTA                                                                                                                                     <  2:148822/141‑1                   CTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTC                                                                                                                          <  1:853482/143‑1                          CGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTT                                                                                                                   >  2:677360/1‑143                            TTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTCGTCCAATTCTCTCCAGTTTG                                                                                                                 >  1:329715/1‑143                            TTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTG                                                                                                                 >  1:318903/1‑143                                  ACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGG                                                                                                           >  1:431174/1‑143                                       CCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGA                                                                                                      >  1:268681/1‑143                                        CCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAA                                                                                                     >  1:521254/1‑143                                        CCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAAATGTAGTACAATTCTCTCCAGTTTGAACAGaacacaa                                                                                                     >  1:911148/1‑136                                               taaCTGAACAGGAGGGGCAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTA                                                                                              <  2:891946/140‑1                                                AGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGATTGAACAGGAAAGAATATGCTAT                                                                                             >  2:726586/1‑143                                                   taAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGTAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAA                                                                                          <  2:646094/141‑1                                                   TGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAAACAGTAAGTCGGCAGCATCACCCCAACTGTAGTACAATTCTCTCCAGATTGAACAGGAAAGAATATGCCATGAc                                                                                          >  2:861514/1‑142                                                    ggacgGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAAC                                                                                         <  2:805631/138‑1                                                     AACAGGAGGGACAGCTGATAGAAAGCGAAGCCACTGGAGCACCGCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCGCCAGTTTGAACAGGAAAGAATATGCTATGAACC                                                                                        <  1:843002/143‑1                                                         GGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCaca                                                                                    >  2:887054/1‑140                                                         GGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTA                                                                                    >  2:100360/1‑143                                                         GGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTA                                                                                    >  2:106628/1‑143                                                          GAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAACGAATATGCTATGAACCCTTAT                                                                                   >  2:76732/1‑143                                                          GAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTAT                                                                                   >  1:373193/1‑143                                                          GAGGGACAACTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAACCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACACTTCTCTCCAGTTTGAACAGCAAAGAATCTGCTATGAACCCCTAc                                                                                   >  2:800095/1‑142                                                                      ATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTACAGTTTGAACAGGAAAGAATATGCTATGAACCCCTATATTTATCTTGGT                                                                       >  2:466194/1‑143                                                                            ACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCA                                                                 >  1:606175/1‑143                                                                                AAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCCTATACTTATCTCGCTGGTGCAATAC                                                             >  1:858687/1‑143                                                                                       TGGAGCACCTCAAAAACCCCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGA                                                      <  1:572751/143‑1                                                                                         gatCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTT                                                                                                                  <  1:426234/78‑1                                                                                         GAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGG                                                    >  2:590041/1‑143                                                                                         GAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTT                                                                                                                  >  2:426234/1‑81                                                                                           GCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATCCTTGCAGAGGTC                                                  >  1:800802/1‑143                                                                                           GCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTC                                                  >  2:514537/1‑143                                                                                               CTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTCTATTTCTCTTGGTGGTGCAATACTTGCAGAGGACATTt                                              >  2:821567/1‑142                                                                                               CTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTG                                              >  2:239558/1‑143                                                                                               CTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTG                                              <  1:212177/143‑1                                                                                                TCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGTACAGGAAAGAATATCGTATGCACGCTTTTATTTATCTTGGTGTTGCAATACTTGCAGAGGTCATTGc                                             >  2:102619/1‑142                                                                                                TCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGG                                             >  2:184534/1‑143                                                                                                          CATCATACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTA                                   >  2:767306/1‑143                                                                                                               TACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAA                              <  1:100360/143‑1                                                                                                               TACACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATACTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAA                              <  1:106628/143‑1                                                                                                                ACACTAAATCAGTAAGTTGGCAGCATCACTCAAACTGTAGTACAATTCTCTCCAGTTTGAACATGAAAGAATATGTTATGGACCCTTATATTTAGCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAG                             <  1:347951/143‑1                                                                                                                  ACTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTT                           >  1:370009/1‑143                                                                                                                   CTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTT                          >  1:515402/1‑143                                                                                                                   CTAAATCAGTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTT                          >  1:819290/1‑143                                                                                                                           GTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTGTCCAGTTTGAAAAGGAAAGAATATGATATGAAACATTATATTTATCTTGGTGGTGCAATAATTGCAGAGGTGATTGGTACAACGTTAATGAAGTTTTCAGAAGG                  >  2:335284/1‑143                                                                                                                           GTAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGG                  >  2:625837/1‑143                                                                                                                            TAAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTAGTACAACCTTAATGAAGTATTAAGAAGGT                 >  2:239738/1‑143                                                                                                                             AAGTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTT                <  1:590041/143‑1                                                                                                                               GTTGGCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGCAACCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTTTT              >  2:884094/1‑143                                                                                                                                   GCAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTAATTAGTACAACCTTAATGGAGTTTTCAGAAGGTTTTACAC          >  2:538926/1‑143                                                                                                                                    CAGCATCACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAAGTCATTGGTACTACCTTACTGAAGCTTTCAGAAGGGTTTCCACG         >  2:496627/1‑143                                                                                                                                       CATCACCCACACTCTAGTACAATTCGCTCCAATTTGAGCAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTGTCAGAAGGTTTTACACGGTT      <  2:536032/143‑1                                                                                                                                          CACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGGTTTACACGGTTATG   >  1:498034/1‑143                                                                                                                                           ACCCAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTTTTACACGGTTATGG  >  1:521234/1‑143                                                                                                                                                                                                                                                                                           CGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/258535‑258675 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CAAACTGTAGTACAATTCTCTCCAGTTTGAACAGGAAAGAATATGCTATGAACCCTTATATTTATCTTGGTGGTGCAATACTTGCAGAGGTCATTGGTACAACCTTAATGAAGTTTTCAGAAGGTTTTACACGGTTATGG  >  NC_000913/568268‑568407

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.