Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	1,978,503	Δ776 bp		insB1–insA	insB1, insA

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	1978503	1979278	776	43 [0]	[0] 43	insB1–insA	insB1, insA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1978502	0 (0.000)	40 (1.010)	35/268	0.1	100%	intergenic (‑305/+16)	flhD/insB1	flagellar class II regulon transcriptional activator, with FlhC/IS1 transposase B
	?	NC_000913	1979279 =	0 (0.000)					intergenic (‑64/‑474)	insA/uspC	IS1 repressor TnpA/universal stress protein

TTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTAT  >  NC_000913/1978366‑1978639                                                                                                                                         |                                                                                                                                          tttACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATAACACAAGACACTCAATTACTTAACATAAATGtataag                                                                                                                                     >  1:707882‑M1/1‑137 (MQ=255)      acTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatc                                                                                                                                >  2:543693‑M1/1‑132 (MQ=255)             tAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgt                                                                                                                         >  2:569606‑M1/1‑125 (MQ=255)             tAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgt                                                                                                                         >  1:149350‑M1/1‑125 (MQ=255)                 aTTGTTCCTAAATCGACGCACCTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttg                                                                                                                     <  1:11797‑M1/143‑23 (MQ=255)                  tttttCCTAAGTCGACGCGACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgg                                                                                                                    <  1:452709‑M1/143‑24 (MQ=255)                   ttttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttggg                                                                                                                   <  2:624689‑M1/143‑25 (MQ=255)                    tttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGACTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacatttgttttgggt                                                                                                                  >  1:455011‑M1/1‑118 (MQ=255)                     ttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtg                                                                                                                 >  1:111155‑M1/1‑117 (MQ=255)                            aTCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACGCAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttca                                                                                                          >  1:573301‑M1/1‑110 (MQ=255)                              cGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaat                                                                                                        <  2:328515‑M1/143‑36 (MQ=255)                               gACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatc                                                                                                       >  2:586929‑M1/1‑107 (MQ=255)                                  gCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGACTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgt                                                                                                    <  2:447200‑M1/143‑40 (MQ=255)                                        gTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaa                                                                                              <  2:37707‑M1/143‑46 (MQ=255)                                           cTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGAGTGCTGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataaatcatacttttgttttgggtgtatttcaatcttttaaaaagtt                                                                                           >  1:46457‑M1/1‑95 (MQ=255)                                            tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGCTTTTCAATAATGCGTGATGCAGATCACACAAAACACTCACTTACTTAACATAAATGtataagtcatacttttgttttgcgtgtatttcactctcttcaaacgctt                                                                                          >  1:240386‑M1/1‑94 (MQ=255)                                            tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagttt                                                                                          >  1:113696‑M1/1‑94 (MQ=255)                                              gTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTCCAATGATGCGTGATGCAGATCACACAAAACTCTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagttttt                                                                                        <  1:548831‑M1/143‑52 (MQ=255)                                                   tACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgcta                                                                                   >  2:479139‑M1/1‑87 (MQ=255)                                                   tACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgctttggttgtgtttcgatgtgttaacaaggttttcgctg                                                                                   >  2:24700‑M1/1‑87 (MQ=255)                                                      acGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtctttcgctacgc                                                                                >  1:302890‑M1/1‑84 (MQ=255)                                                        gCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgcta                                                                              <  2:149350‑M1/143‑62 (MQ=255)                                                                aaCGGAGGGGTGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgtttggggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaa                                                                      <  1:531392‑M1/143‑70 (MQ=255)                                                                aaCGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaa                                                                      >  2:324740‑M1/1‑74 (MQ=255)                                                                 aCGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGAAGATCACACAAAACACTGAATTACTTAACATAAATGtataagtgatacttttgttttgggtgtatttcaatctgttaaaaagattttctctacgctagcaagcaaa                                                                     >  1:19724‑M1/1‑73 (MQ=255)                                                                           gCTGCGATTTTCAAGAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacag                                                           <  2:622576‑M1/143‑81 (MQ=255)                                                                                   ttttgataatgcgtgATGCAGATCATACGAAACACTCAATTTCTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaaggttttcgctacgctagcaagcaaaaatgaaacaggaataatg                                                   <  1:5353‑M1/138‑89 (MQ=255)                                                                                    ttCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcg                                                  >  1:411598‑M1/1‑54 (MQ=255)                                                                                          aatGCGTGATGCAGAGTACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgg                                            <  1:104276‑M1/143‑96 (MQ=255)                                                                                           atGCCTGATGCAGATCACCCAAAACACGCAATGACTTAACATAAATGtataagtcatacttgtgtgttgcatgactttacatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatggg                                           <  1:185017‑M1/143‑97 (MQ=255)                                                                                            tGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatggga                                          <  2:72478‑M1/143‑98 (MQ=255)                                                                                                    gCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttccgc                                  >  1:406095‑M1/1‑38 (MQ=255)                                                                                                          cacacaAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtc                            >  2:332637‑M1/1‑32 (MQ=255)                                                                                                             acaAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttggctacgcgatcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaa                         >  2:64860‑M1/1‑29 (MQ=255)                                                                                                                aaaCACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtaaagata                      >  2:451935‑M1/1‑26 (MQ=255)                                                                                                                 aaCACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataa                     >  2:215168‑M1/1‑25 (MQ=255)                                                                                                                        aaTTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccg              >  2:366207‑M1/1‑18 (MQ=255)                                                                                                                         aTTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgttacgctagcaagcaaaaatgaaacaggaataatcgaaatgggctgttgcgaacagtcaaaataactcacagt             >  1:46513‑M1/1‑17 (MQ=255)                                                                                                                              ttAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaata        >  1:559887‑M1/1‑12 (MQ=255)                                                                                                                               tAATATAAACGtatcagtcatacttttgttttgggtgtatttcaatctgttaaaaagttttgcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataa       <  2:227518‑M1/143‑133 (MQ=255)                                                                                                                                  cATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatca    <  2:302890‑M1/143‑136 (MQ=255)                                                                                                                                   aTAAATGtataagtcagacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcat   <  1:469702‑M1/143‑137 (MQ=255)                                                                                                                                    tAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatc  >  2:427140‑M1/1‑6 (MQ=255)                                                                                                                                         |                                                                                                                                          TTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTAT  >  NC_000913/1978366‑1978639

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: ‑