Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	1,743,880	IS1 (–) +9 bp	coding (424‑432/1374 nt)	mdtK →	multidrug efflux system transporter

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 258675	NA (NA)	42 (0.850)	36/298	0.7	100%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	1743880 =	0 (0.000)					coding (424/1374 nt)	mdtK	multidrug efflux system transporter
*	?	NC_000913	= 1743888	0 (0.000)	46 (0.940)	43/298	0.3	100%	coding (432/1374 nt)	mdtK	multidrug efflux system transporter
	?	NC_000913	1978503 =	NA (NA)					noncoding (768/768 nt)	IS1	repeat region

TTGTTTCCGTTCTCATTATGCTGGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1743746‑1743888 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCG  >  NC_000913/1978503‑1978652                                                                                                                                                                                                                                                                                                       TTGTTTCCGTTCTCATTATGCTGGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATG                                                                                                                                                 <  1:377541/150‑1     TTCCGTTCTCATTATGCTGGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCC                                                                                                                                            >  1:654665/1‑151         GTTCTCATTATGCTGGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACT                                                                                                                                        <  2:330833/151‑1           TCTCATTATGCTGGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTT                                                                                                                                       >  1:82718/1‑150                 TATGCTGGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGAT                                                                                                                                 <  1:403851/150‑1                  ATGCTGGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAG                                                                                                                               <  2:168724/151‑1                  ATGCTGGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAG                                                                                                                               <  1:718536/151‑1                   TGCTGGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAG                                                                                                                               >  1:383176/1‑150                       GGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTT                                                                                                                          >  1:372679/1‑151                       GGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGT                                                                                                                            <  2:484786/149‑1                         TGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTT                                                                                                                         >  1:253030/1‑150                          GCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTAT                                                                                                                       <  1:756725/151‑1                               GGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCA                                                                                                                  <  2:394978/151‑1                                          TACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCG                                                                                                       >  2:629277/1‑151                                          TACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCC                                                                                                        <  2:357199/150‑1                                           ACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGA                                                                                                      <  2:490273/151‑1                                                ATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACT                                                                                                 >  2:367062/1‑151                                                  CCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTT                                                                                               >  2:305744/1‑151                                                    GCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGT                                                                                             >  2:146550/1‑151                                                          TGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGC                                                                                        >  2:552552/1‑150                                                           GGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGC                                                                                        >  2:143782/1‑149                                                            GAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGC                                                                                     <  1:601387/151‑1                                                             AAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCT                                                                                    >  1:759613/1‑151                                                                    CGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCG                                                                              >  1:715393/1‑150                                                                        CCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTT                                                                         <  2:248432/151‑1                                                                           GCTCTGGCCGCCAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGCGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGCTGACTTTGTCATGCAGCTCCACCGATTTTG                                                                        >  2:469578/1‑149                                                                                  CGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGAC                                                                >  1:217349/1‑150                                                                                     ACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCG                                                            >  2:700716/1‑151                                                                                         AGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTT                                                        >  2:591213/1‑151                                                                                           CCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCC                                                      >  2:521475/1‑151                                                                                                               TTGTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGC                                  >  2:483514/1‑151                                                                                                                 GTTGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCT                                 <  1:455919/150‑1                                                                                                                   TGTGGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGC                               <  1:198252/150‑1                                                                                                                      GGGGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTC                            >  1:656799/1‑150                                                                                                                        GGCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGA                         <  2:275565/151‑1                                                                                                                         GCGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGAT                        <  1:725069/151‑1                                                                                                                          CGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATT                       >  1:188833/1‑151                                                                                                                          CGCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATT                       <  1:172610/151‑1                                                                                                                           GCGCCGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTC                      <  2:727350/151‑1                                                                                                                               CGGGATATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGT                  <  1:381679/151‑1                                                                                                                                   ATATCTGTTCTTCGGTAATGACTCCAACTTATAGATAGTGTTCTATGTTCAGATAATGCCCGATGACCTTGTCATGCAGCTCCACCGCTTTTGAGAACGCCAGCGACTTCCGTCCCAGCCGAGCGAGGTGCAGCCTCAGATTCAGct                  >  2:47480/1‑145                                                                                                                                    TATCTGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGACTCAGGTTATGC             >  2:257749/1‑151                                                                                                                                        TGTTCTTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCT         >  2:705902/1‑151                                                                                                                                             TTCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATT    >  2:210804/1‑151                                                                                                                                              TCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATT    >  1:234855/1‑150                                                                                                                                               CGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCG  <  1:528672/151‑1                                                                                                                                                                                                                                                                                                       TTGTTTCCGTTCTCATTATGCTGGTGCTGTGGAATGCAGGTTACATTATCCGCTCCATGGAAAACATCGATCCGGCTCTGGCGGACAAAGCCGTGGGTTATCTGCGTGCGTTGTTGTGGGGCGCGCCGGGATATCTGTTCTTC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1743746‑1743888 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATTCG  >  NC_000913/1978503‑1978652

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ 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.