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

AGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/19938‑19796 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGGCGACACTCCTTAAAAATCAGATTCGTGCTCACCTTTCCTTC  <  NC_000913/568276‑568143                                                                                                                                                                                                                                                                                       AGCGGCATGACCTGAATCGGAGGCAGCACCTGGCACGGCTGGGACGGAGGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                                                        <  1:386442/143‑1      CATAACCTGAATCTGAGGCACCACCTGTCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACCAAGTCATCGGGCATTCTCTGACCATACAACACTAGCAATAAGTTGCAGTCCTTACCTACAG                                                                                                                                   >  1:374689/1‑143            CTGGATCTGGGGCAGGTCCAGGCTCGGCTTTGACGGAAGTCGCTGTCGTTCTCAAACTCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCTATAAGTTGGAGTCATTACCTACAGTTTGAA                                                                                                                             <  2:362167/143‑1            CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAA                                                                                                                             >  1:776154/1‑143            CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAA                                                                                                                             <  1:430820/143‑1            CTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGGTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAA                                                                                                                             <  2:7449/143‑1             tgcctcgGAGGCAGCAGCTGGCACGGATGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATTAATAAGTTGGAGTCATTACCTACAGTTTGAAC                                                                                                                            <  2:481589/136‑1             TGAGTCGGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATCATCTCCACACGCATCGTGAGCAATGAGTTGGAGTCATTACCTACAGTTTGAAC                                                                                                                            <  1:635193/143‑1               acgcgGAGGCAGCACCTGGCACGGCTGGGACGGAAACCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTC                                                                                                                          <  2:693763/138‑1                                   ACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGGCATTACATACAGTTTGTACTCAACTCACCTGTTTCATCATT                                                                                                      >  1:576346/1‑143                                        TGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTT                                                                                                 <  1:381835/143‑1                                           GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCACTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACGCAACGTACCTGTCTAATCATTATGTTata                                                                                              >  2:98391/1‑140                                                AAGTCGCTGTCGTTCTCCAAATCGGTGGAGCTGCATGCCACAGTCATCGGGCATTATCTGAACATCAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGA                                                                                         >  1:195382/1‑143                                                AAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCCGAACATAAAACACTATCAATAAGTCGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGA                                                                                         >  2:457120/1‑143                                                AAGTCGCTGTCGGTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGA                                                                                         <  2:48975/143‑1                                                     GCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCCTCATTGTGTTCCCATTGTTGTcc                                                                                    >  1:619016/1‑141                                                       agtaGTTGTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCCGTTTCATCATTGTGTTCCCATTGATGTTCTT                                                                                  <  2:68442/139‑1                                                        GTCTTTCGCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAGACACTATCAATAAGTTGGAGTCATAACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTT                                                                                 <  2:458289/143‑1                                                         TCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCAGTATCTGAACATAAAACACTATCAACAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTT                                                                                <  2:374689/143‑1                                                               TCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATAC                                                                          >  1:226586/1‑143                                                                CAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACC                                                                         <  1:904083/143‑1                                                                CAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTAAAAAGCCGTTGGGGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACC                                                                         >  1:582308/1‑143                                                                 AAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCC                                                                        >  1:14763/1‑143                                                                   AATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTACCAATAAGTTGGAGTCAGTACCGACAGGTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCGTTTATATACCCTC                                                                      >  2:500564/1‑143                                                                        GTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATAC                                                                 >  1:160942/1‑143                                                                          GGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCCCAATACCC                                                               >  2:21103/1‑143                                                                           GAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCG                                                              >  1:743520/1‑143                                                                              CTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTT                                                           >  2:220117/1‑143                                                                                  ATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATC                                                       >  1:49014/1‑143                                                                                   TGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCG                                                      >  1:358592/1‑143                                                                                    GACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATCCCCGTTTCATCGC                                                     >  1:219508/1‑143                                                                                     ACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGGCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTACATACCCTCAATAACCGTCTCATCGCG                                                    >  2:587421/1‑143                                                                                      CAAAGTCATCGGGCATTAGCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGG                                                   <  1:785446/143‑1                                                                                             ATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCCCTCTG                                            >  2:229770/1‑143                                                                                              ttGGGCAGGATCTGGACATAAAACACCAGCGACAAGTGGGAGTCATTCCCTACGGTGTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGG                                           <  1:332608/141‑1                                                                                                ggcCATTATCTGAACATAACACACTATCAATAAGTTGACGTCATTACCTACAGTTTGAACTCAACTCACCTGGTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGGCG                                         <  1:218013/140‑1                                                                                                   tgTTATCTGAACATAAAACGGTATCAATAATTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGGCGACA                                      <  2:607639/141‑1                                                                                                                TAACACACGATCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGGCGACACTCCTTAAAAATC                         <  1:815995/143‑1                                                                                                                        TATCAATAAGTTGGAGTCATTACCTACAGTTTGTACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGGCGACACTCCTTAAAAATCAGATTCGT                 >  1:882510/1‑143                                                                                                                          TCAATAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGGCGACACTCCTTAAAAATCAGATTCGTGC               <  2:542602/143‑1                                                                                                                              TAAGTTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGGCGACACTCCTTAAAAATCAGATTCGTGCTCAC           <  2:358408/143‑1                                                                                                                                  TTGGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGGCGACACTCCTTAAAAATCAGATTCGTGCTCACCTTT       >  2:341087/1‑143                                                                                                                                    GGAGTCATTACCTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGGCGACACTCCTTAAAAATCAGATTCGTGCTCACCTTTCC     <  2:49014/143‑1                                                                                                                                       GTCATTACCTTCAGTTTGAACTCATCTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCTTCAATACCCGTTTCATCGCGGCACTCGGGCGACACTCCTTAAAAATCAGATTCGTGCTCACCTTTCCTTC  <  2:608370/143‑1                                                                                                                                                                                                                                                                                       AGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/19938‑19796 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cTACAGTTTGAACTCAACTCACCTGTTTCATCATTGTGTTCCCATTGATGTTCTTTTATATACCCTCAATACCCGTTTCATCGCGGCACTCTGGCGACACTCCTTAAAAATCAGATTCGTGCTCACCTTTCCTTC  <  NC_000913/568276‑568143

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ 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.