Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	1,619,080	Δ35 bp	intergenic (‑172/‑6)	marC ← / → marR	UPF0056 family inner membrane protein/transcriptional repressor of multiple antibiotic resistance

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	1619080	1619114	35	50 [0]	[1] 51	marC/marR	UPF0056 family inner membrane protein/transcriptional repressor of multiple antibiotic resistance

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1619079	0 (0.000)	47 (1.210)	44/272	0.0	99.0%	intergenic (‑171/‑41)	marC/marR	UPF0056 family inner membrane protein/transcriptional repressor of multiple antibiotic resistance
	?	NC_000913	1619115 =	1 (0.030)					intergenic (‑207/‑5)	marC/marR	UPF0056 family inner membrane protein/transcriptional repressor of multiple antibiotic resistance

CGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAATATTATCCCCTGCAACTAATTACTTGCCAGGGCAACTAATGTGAAAAGTACCAGCGATCTGTTCAATGAAATTATTCCATTGGGTCGCTTAATCCATATGGTTAATCAGAAGAAAGATCGCCTGCTTAACGAGTATCTG  >  NC_000913/1618943‑1619218                                                                                                                                         |                                                                                                                                            cGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGCGCAActaatg                                                                                                                                       >  1:632523‑M1/1‑137 (MQ=255)  gAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAATCTTGAACCGATTTAGCAAAACATAGCAACAGACAATTCATTAATTTGACTTATACTTGCCTGGGCAActaatgt                                                                                                                                      >  2:20732‑M1/1‑136 (MQ=255)  gAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgt                                                                                                                                      <  1:716689‑M1/143‑8 (MQ=255)   aaaaGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTCCCTGGGCAActaatgtg                                                                                                                                     >  1:30011‑M1/1‑135 (MQ=255)       gTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaa                                                                                                                                 <  2:374332‑M1/143‑13 (MQ=255)         ataAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCACTTCATTCATTTGACTTTTACTTGCCTGGGCAActaatgtgaaaagt                                                                                                                               >  2:43697‑M1/1‑129 (MQ=255)          taAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagta                                                                                                                              >  1:140874‑M1/1‑128 (MQ=255)              gggTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCCTTTGACTTATACTTGCCTGGCCAAcacatgtgcaaagtacaaa                                                                                                                          >  2:114271‑M1/1‑124 (MQ=255)                    aCAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatct                                                                                                                    <  1:256702‑M1/143‑26 (MQ=255)                         gATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttca                                                                                                               >  1:419794‑M1/1‑113 (MQ=255)                           tAATGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGAGATAGCAAAACGTGGCATCGGGCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaat                                                                                                             <  2:84585‑M1/143‑33 (MQ=255)                            aaaGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGCTTTCGCAAAACGTCGCATCGTTCAATTCATTCATTTGACTTATACATACCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatg                                                                                                            >  2:147488‑M1/1‑110 (MQ=255)                              tgtgtcTCTCTTTAGTTAGCCTTGCATCGCATTGAATAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATGCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaa                                                                                                          <  2:240399‑M1/142‑36 (MQ=255)                               gtgtCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTTAACCGATTTAGCAAAACGTGGCATCGGTTAATTCATTCATTTGACTTATACTTTCTTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaa                                                                                                         <  1:634659‑M1/143‑37 (MQ=255)                                    aCTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActactgtgaaatgtaccagcgatctgttcaatgaaattatt                                                                                                    >  2:144589‑M1/1‑102 (MQ=255)                                     ctctTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattc                                                                                                   <  1:588057‑M1/143‑43 (MQ=255)                                       ctTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACGGATTTAGGAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGACTGGGCAAcgaatgtgaaaaataccagcgatctgttcaataagattattaca                                                                                                 >  1:494653‑M1/1‑99 (MQ=255)                                                   ttGCATCGCATTGAACAAAACTTGAAACGATTTAGCAAAACGTAGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttccatgaaataatcccattgggtccccta                                                                                     >  1:121233‑M1/1‑87 (MQ=255)                                                        tCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgagcagtaccagcgatctgttcaataaaattattcaattggatcacttaataca                                                                                >  2:209000‑M1/1‑82 (MQ=255)                                                          gCATTGAAACAACCTTTAACCGTTTGAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccata                                                                              <  1:144589‑M1/143‑64 (MQ=255)                                                            aTTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGACTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatg                                                                            <  2:392644‑M1/143‑66 (MQ=255)                                                                aaCAATACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggtta                                                                        <  1:409200‑M1/143‑70 (MQ=255)                                                                  cAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTTAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaat                                                                      <  2:278720‑M1/143‑72 (MQ=255)                                                                    aaaCTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatca                                                                    <  2:504042‑M1/143‑74 (MQ=255)                                                                       cTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaa                                                                 <  1:52120‑M1/143‑77 (MQ=255)                                                                        ttGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaataagaag                                                                >  2:313618‑M1/1‑66 (MQ=255)                                                                          gAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgacaagtaccagcgatctgttcaatgacattattacattggatcgagtaatccatatggttaatcagaagaa                                                              >  2:563863‑M1/1‑64 (MQ=255)                                                                               tatTTGGCAAATCGTGGCTTGGGTCATTTCCTTCTTTTGACTTATAATGGGCTGGGCAActaatgtgaaaagtaccagcgatcttttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatc                                                         <  2:601611‑M1/142‑85 (MQ=255)                                                                                aTTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccata                                                                              <  1:257879‑M1/121‑64 (MQ=255)                                                                                aTTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccata                                                                              >  2:257879‑M1/1‑58 (MQ=255)                                                                                    aGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatcgcctg                                                    <  2:140874‑M1/143‑90 (MQ=255)                                                                                         aacttggactcggtcaattCAGTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaaggaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatcgcctgcttaa                                               <  1:15612‑M1/134‑95 (MQ=255)                                                                                                cATCGGTCAATTCATTCATTTGTCTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatcgcctgcttaacgagtat                                        <  2:423011‑M1/143‑102 (MQ=255)                                                                                                 aTCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtacccgcgatctgttcactgaaattattcaatagggtcgcttaatcaaaatgattaatcagaagaaagatcgcctgcttaacgagtatc                                       >  2:4207‑M1/1‑41 (MQ=255)                                                                                                  tCGGTCAATTCATTAATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatcgcctgcttaacgagtatct                                      <  1:259973‑M1/143‑104 (MQ=255)                                                                                                   cGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagatagatcgcctgctaaacgaaaaaaga                                     >  2:218913‑M1/1‑39 (MQ=255)                                                                                                           tcattcatTTGACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagtagcaagatcgcctggttcacgagtatctgtctcgtct                             >  2:701560‑M1/1‑31 (MQ=255)                                                                                                             cttcacttGACTTATACTGCCCTGGTCAActcatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttattccatatggttaatcagaagaaatatcgcctgcttaacgagtatctgtctccgctgg                           <  1:168353‑M1/142‑115 (MQ=255)                                                                                                                    tGAGTTATACTTGCCTGGTCAActaatgtgaaaagtacgagcggtctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatcgcctgcttaacgagtatctgtctccgctggatattac                    <  2:501646‑M1/143‑122 (MQ=255)                                                                                                                     gACTTATACTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatcgcctgcttaacgagtatctgtctcagctggatattacc                   >  2:464559‑M1/1‑21 (MQ=255)                                                                                                                        ttATACTTGCCTGAGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattataccattgggtcgcttaatccatatagttaatcagaagaaagatcgcctgattaacgagtatctatctcatctagatattacaccc                >  1:145560‑M1/1‑18 (MQ=255)                                                                                                                          ataCTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatcgcctgtttaactagtatctgtctccgctggatattaaagcgac              >  2:257893‑M1/1‑16 (MQ=255)                                                                                                                          ataCTTGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaaccagaagaaagatcgcctgcttaacaagtatctatatcagctagatattaccgcggc              >  2:587893‑M1/1‑16 (MQ=255)                                                                                                                              ttGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagcacgctcgcctgcttaacgagtatctatctcaaatgaatattacagaggaacaa          >  2:503408‑M1/1‑12 (MQ=255)                                                                                                                              ttGCCTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaacgatcgcgtgcttaacgagaatcagacacagatgaatattaccaaagcacag          >  2:36215‑M1/1‑12 (MQ=255)                                                                                                                                  cTGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatcgcctgcttaacgagtatctgtctccgctggatattaccgcggcacagttta      <  2:419794‑M1/143‑136 (MQ=255)                                                                                                                                   tGGGCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaagcagaagaaagatcgcctgcttaacgagtatctgtctccgctggatattaccgcggcacagtttaa     <  2:347964‑M1/143‑137 (MQ=255)                                                                                                                                    gggCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatcgcttgcttaacgagtatctgtctccgctggatattaccgcggcacagtttaag    >  2:385184‑M1/1‑6 (MQ=255)                                                                                                                                    gaacaactaatattaaaagtaccaaagatctgttcaatgaaattattccattgggtcgcttaatccatatggttaatcagaagaaagatcgcctgcttaacgagtatctgtctccgctggatattaccgcggcacagtttaag    <  2:158448‑M1/140‑138 (MQ=255)                                                                                                                                      gCAActaatgtgaaaagtaccagcgatctgttcaatgaaattattccattggggcgcttaatcaatatggttaatcagaagaaagatcgcctgcttaacgagtatctgtatcaactggctattaccgctgcacagcttacgtc  >  1:654550‑M1/1‑4 (MQ=255)                                                                                                                                         |                                                                                                                                            CGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACTTATACTTGCCTGGGCAATATTATCCCCTGCAACTAATTACTTGCCAGGGCAACTAATGTGAAAAGTACCAGCGATCTGTTCAATGAAATTATTCCATTGGGTCGCTTAATCCATATGGTTAATCAGAAGAAAGATCGCCTGCTTAACGAGTATCTG  >  NC_000913/1618943‑1619218

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: ‑