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	1978503–1979270	1979278	9–776	60 [0]	[0] 60	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)	59 (0.940)	46/268	0.3	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

ACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTA  >  NC_000913/1978371‑1978638                                                                                                                                    |                                                                                                                                         acTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcata                                                                                                                               >  1:1092903‑M1/1‑132 (MQ=255) acTTATCTAAGATTTTTCCTAAATCAACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcata                                                                                                                               >  2:605435‑M1/1‑132 (MQ=255)  ctgatctAAGTTTTTTCCTAAAGCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatac                                                                                                                              <  2:61137‑M1/140‑13 (MQ=255)  cTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatac                                                                                                                              <  2:975194‑M1/143‑13 (MQ=255)  cTTATCTAAGATTTTTCCTAAATCGACGCAAATGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatac                                                                                                                              <  1:269428‑M1/143‑13 (MQ=255)        tAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgt                                                                                                                        >  1:1111232‑M1/1‑125 (MQ=255)           gacttttcctATATAGACTCAACTGTACTCGTTCCTACCCTGATATGCAACGGAGGGGGGCTGCAATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgtttt                                                                                                                     <  2:843193‑M1/140‑22 (MQ=255)            aTTTTTCCTAAATCGACGCAACTGTACTCGTTACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttg                                                                                                                    <  2:1126540‑M1/143‑23 (MQ=255)             tttttCCTAAATCGACGTAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgg                                                                                                                   <  1:1160044‑M1/143‑24 (MQ=255)             tttttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgg                                                                                                                   <  1:803170‑M1/143‑24 (MQ=255)             tttttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgg                                                                                                                   <  1:847467‑M1/143‑24 (MQ=255)               cttcCGAACTCGACGCAACTGTACTCGTCACTACACGCACATACAACGGATGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggt                                                                                                                 <  1:349300‑M1/142‑26 (MQ=255)                   cTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAAGGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATGACACAAAACACTCAATTACTTAACATAAATGtatgggtcatactattgttttgggggtgt                                                                                                             >  1:269772‑M1/1‑114 (MQ=255)                         cGACGCAACTGTACTCGTCACCACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAAAGtataagtcatacttttgttttgggtgtatttcaat                                                                                                       <  1:772964‑M1/143‑36 (MQ=255)                           aCGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactctcgtcttgggtctatttccacct                                                                                                     >  2:335015‑M1/1‑106 (MQ=255)                              cAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgtt                                                                                                  >  2:298968‑M1/1‑103 (MQ=255)                               aaCTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgtta                                                                                                 <  1:297242‑M1/143‑42 (MQ=255)                               aaCTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgtta                                                                                                 >  1:628468‑M1/1‑102 (MQ=255)                                  tGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaa                                                                                              >  1:373755‑M1/1‑99 (MQ=255)                                  tGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTACGCTGGTGAACATAAATGtataagtcatacttttgttttgggtgtaattcaatctgttaaaa                                                                                              >  1:273174‑M1/1‑99 (MQ=255)                                      cTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtt                                                                                          <  1:1037381‑M1/143‑49 (MQ=255)                                       tCGTCACTACACGCACCTACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactcgtgttctcggtgtctttttatctgtacaaaagttg                                                                                         >  2:348405‑M1/1‑94 (MQ=255)                                       tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTACCATAAATAtataactcatacctttgctatgggtgtataccaatatgttaaacagatt                                                                                         >  2:736879‑M1/1‑94 (MQ=255)                                       tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtctaagtcatacttttgttttgggtgtatttcaatctgttaaaaagttt                                                                                         >  2:171430‑M1/1‑94 (MQ=255)                                       tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagttt                                                                                         >  2:1116259‑M1/1‑94 (MQ=255)                                         gTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgtcaaaaagttttt                                                                                       >  1:204795‑M1/1‑92 (MQ=255)                                         ctcACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGCTCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagttttt                                                                                       <  1:444821‑M1/142‑52 (MQ=255)                                           cACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcg                                                                                     <  1:638961‑M1/143‑54 (MQ=255)                                            aCTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgc                                                                                    >  1:630830‑M1/1‑89 (MQ=255)                                             cTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgct                                                                                   >  2:302474‑M1/1‑88 (MQ=255)                                                      cagacaaCGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagca                                                                          <  1:344595‑M1/140‑65 (MQ=255)                                                        tACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCGCACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaag                                                                        >  2:278206‑M1/1‑77 (MQ=255)                                                            aCGGAGGGGGGCTGAGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcactctgttaaaaagtttttcgctaggatagcacgaaac                                                                    >  2:856291‑M1/1‑73 (MQ=255)                                                             cGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAACGtataactcatacttttgttttgggtgtatttcaatctgttaaaaagttgctcgctccgcgagcaagccaca                                                                   >  2:16634‑M1/1‑72 (MQ=255)                                                              ggAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaa                                                                  <  1:854617‑M1/143‑73 (MQ=255)                                                                aGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatg                                                                <  2:264945‑M1/143‑75 (MQ=255)                                                                 ggggggCTGCGGTTTTCATTAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatga                                                               <  2:904456‑M1/143‑76 (MQ=255)                                                                   ggggCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaa                                                             <  1:794640‑M1/143‑78 (MQ=255)                                                                      gCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacag                                                          <  1:1039874‑M1/143‑81 (MQ=255)                                                                        tGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacagga                                                        >  2:499938‑M1/1‑61 (MQ=255)                                                                         gCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaa                                                       <  2:801810‑M1/143‑84 (MQ=255)                                                                            aTTTTCAATAATGCGTGATGCAGATCACACAAGACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttccatctgttaaaaagtttttcgctacgctagcaagccacaaggaaacaggaatcc                                                    >  2:80763‑M1/1‑57 (MQ=255)                                                                               ttCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcg                                                 >  1:304560‑M1/1‑54 (MQ=255)                                                                               ttCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgtgttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcg                                                 >  2:17399‑M1/1‑54 (MQ=255)                                                                                  aataatGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaacacctttaacgcagcgcgagcaagcaaaaatgaaacaggaataatcgaaa                                              >  2:1161501‑M1/1‑51 (MQ=255)                                                                                    taatGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactgttgttttgggtgtatttaaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaatactcgaaatg                                            >  2:299969‑M1/1‑49 (MQ=255)                                                                                           tGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttatcgcaaagaaaccaagcccaaattatacaggaataatcgaaatgggatgtt                                     <  1:282666‑M1/143‑102 (MQ=255)                                                                                             aTGCAGATCAAACAAAACACTCAATTACTTAACATAAATGgataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgc                                   <  1:776184‑M1/143‑104 (MQ=255)                                                                                                  gATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcaca                              >  2:1116803‑M1/1‑35 (MQ=255)                                                                                                  gATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttccgcaca                              >  2:873463‑M1/1‑35 (MQ=255)                                                                                                        acaAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgatagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaa                        >  1:1001809‑M1/1‑29 (MQ=255)                                                                                                            aaCACTGAATTTCTTATCATAAATGtatatgtcatacttttgtttggggtgtatgtcaatcgggtaaaaagtgtttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataa                    <  1:359478‑M1/143‑119 (MQ=255)                                                                                                                cTCCATTACTTAACATAAATTtataagtcagacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactca                <  2:1113562‑M1/143‑123 (MQ=255)                                                                                                                 tCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcac               >  2:571736‑M1/1‑20 (MQ=255)                                                                                                                 tCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaagctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaatactcgaaatgggatgttgcgcacagacaaaaaaaataac               >  1:938220‑M1/1‑20 (MQ=255)                                                                                                                  cAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcacc              <  1:1080313‑M1/143‑125 (MQ=255)                                                                                                                  cAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcacc              <  1:1080309‑M1/143‑125 (MQ=255)                                                                                                                     ttACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgta           <  1:298968‑M1/143‑128 (MQ=255)                                                                                                                      tACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaa          <  2:501591‑M1/143‑129 (MQ=255)                                                                                                                              aTAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagttcttcgctacgctagcaagccaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcacaataactcaccgtaaataatcat  >  2:314725‑M1/1‑7 (MQ=255)                                                                                                                                    |                                                                                                                                         ACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTA  >  NC_000913/1978371‑1978638

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: ‑