Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913_3_bme_pgi	1,978,503	Δ776 bp		insB1–insA	insB1, insA

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913_3_bme_pgi	1978503	1979278	776	57 [1]	[1] 58	insB1–insA	insB1,insA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_bme_pgi	= 1978502	1 (0.020)	56 (1.070)	45/270	0.2	99.2%	intergenic (‑305/+16)	flhD/insB1	flagellar class II regulon transcriptional activator, with FlhC/IS1 transposase B
	?	NC_000913_3_bme_pgi	1979279 =	0 (0.000)					intergenic (‑64/‑474)	insA/uspC	IS1 repressor TnpA/universal stress protein

TGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAA  >  NC_000913_3_bme_pgi/1979133‑1979427                                                                                                                                                   |                                                                                                                                                     aaatgggtctttacacttatctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgtat                                                                                                                                                    <  1:646423‑M2/3‑1 (MQ=255) aaatgggtctttacacttatctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgtat                                                                                                                                                    <  2:32471‑M2/3‑1 (MQ=255)         ctttacacttatctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATa                                                                                                                                            <  2:44367‑M2/11‑1 (MQ=255)          tttacacttatctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattccttaacataaatgTATAAGTCATAc                                                                                                                                           >  1:618802‑M2/138‑149 (MQ=255)          tttacacttatctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCacac                                                                                                                                           >  1:57103‑M2/138‑149 (MQ=255)              cacttatctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacgctcaattacttaacataaatgTATAAGTCATACtttt                                                                                                                                       <  2:770787‑M2/16‑1 (MQ=255)                 ttatctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatactacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactccattacttaacataaatgTGTACGTCATACttttgtt                                                                                                                                    >  1:700602‑M2/131‑149 (MQ=255)                  tatctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACttttgttt                                                                                                                                   <  1:707587‑M2/20‑1 (MQ=255)                   atctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACttttgtttt                                                                                                                                  <  1:412036‑M2/21‑1 (MQ=255)                     ctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTgg                                                                                                                                <  1:300906‑M2/23‑1 (MQ=255)                     ctaagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTgg                                                                                                                                <  2:661309‑M2/23‑1 (MQ=255)                       aagatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATCCTTTTGTTTTGGgt                                                                                                                              >  1:36109‑M2/125‑149 (MQ=255)                        agatttttcctaaatcgacgcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGgtg                                                                                                                             >  1:657053‑M2/124‑149 (MQ=255)                          atttttcctaaatcgacgtaactgtactcgtgactacacgtacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTa                                                                                                                           <  1:510192‑M2/28‑1 (MQ=255)                                           gcaactgtactcgtcactacacgcacatagaacggaggggggctgcgattttcagtactgcatgatgcaggtcacacaaaacactcgattacttaacataaatgTATAAGTCATACTTTTGTTTTAGGTGTATTTCAATCTGTTcaaaa                                                                                                          >  1:851033‑M2/105‑149 (MQ=255)                                           gcaactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTaaaaa                                                                                                          <  2:566355‑M2/45‑1 (MQ=255)                                           gcaactgtactcgtcacgacacgcacatacaacggaggggggctgggattttcactgatgcgtgatgcagttgacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTATATTTCAATCTGTTaaaaa                                                                                                          <  2:851033‑M2/45‑1 (MQ=255)                                             aactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGt                                                                                                        >  1:760225‑M2/103‑149 (MQ=255)                                             aactgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTCTTGGGTGTATTTCAATCTGttaaaaatt                                                                                                        >  1:844810‑M2/103‑147 (MQ=255)                                              actgtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactctaatacttaacataaatgTATAAGTCATACTTTTGTTTTGGTTGTATTTCAATCTGTTAAAAAGtt                                                                                                       <  1:991311‑M2/48‑1 (MQ=255)                                                 gtactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacatatatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGttttt                                                                                                    <  2:1002039‑M2/51‑1 (MQ=255)                                                  ttctcggcactacacgcacatacaacggaggggggctgcgatttttaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTc                                                                                                   <  2:36109‑M2/52‑1 (MQ=255)                                                  tactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTc                                                                                                   >  1:641443‑M2/98‑149 (MQ=255)                                                  tactcgtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTc                                                                                                   >  1:257517‑M2/98‑149 (MQ=255)                                                       gtcactacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTcgctac                                                                                              >  2:878784‑M2/93‑149 (MQ=255)                                                       gtcactacacgcacatacaacggaggggggctgcgattatcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTcgctac                                                                                              >  2:883688‑M2/93‑149 (MQ=255)                                                           ctacacgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTcgctacgcta                                                                                          <  1:859634‑M2/61‑1 (MQ=255)                                                                cgcacatacaacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataactaTATCGAGCAAACTATGGGTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGctcgcagg                                                                                     >  1:234859‑M2/84‑147 (MQ=255)                                                                         aacggaggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTCGAAAGCAAAAATGa                                                                            >  2:780333‑M2/75‑149 (MQ=255)                                                                              aggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAg                                                                       <  2:257517‑M2/80‑1 (MQ=255)                                                                              aggggggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAg                                                                       >  1:244546‑M2/70‑149 (MQ=255)                                                                                  gggctgcgattttcaataatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTGAATCTGTTAAAAAGTTTTTCCCTACGCTAGCAACACAAAATGAAAACGGaat                                                                   >  2:581784‑M2/66‑149 (MQ=255)                                                                                              tcaataatgcgtgatgcagatcacacaaaacactcaattacttaaaataaatgTATAAGTCATAATTTCGTTTTGGGTGTATTTCAATCTGTTAACAAGTTTTTCGCTACGCTAGCAAGCAAAAATTAAACAGAAATAatcgaaactga                                                       >  2:238278‑M2/54‑145 (MQ=255)                                                                                              ccaataaggcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATggg                                                       <  1:198586‑M2/96‑1 (MQ=255)                                                                                               caataatgcgtgatgcagatcacacaaaacacgcaaatactgaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGa                                                      <  1:91038‑M2/97‑1 (MQ=255)                                                                                                  taatgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGt                                                   <  2:641443‑M2/100‑1 (MQ=255)                                                                                                    atgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATCCTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTg                                                 <  1:954422‑M2/102‑1 (MQ=255)                                                                                                    atgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATACTCGAAATGGGATGTTg                                                 <  1:878784‑M2/102‑1 (MQ=255)                                                                                                    atgcgtgatgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTg                                                 <  1:883688‑M2/102‑1 (MQ=255)                                                                                                           atgcagatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAg                                          <  1:151307‑M2/109‑1 (MQ=255)                                                                                                               agatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATg                                                         >  1:661971‑M2/37‑130 (MQ=255)                                                                                                               agatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATg                                                         <  2:661971‑M2/94‑1 (MQ=255)                                                                                                               agatcacacaaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCaa                                      >  2:157186‑M2/37‑149 (MQ=255)                                                                                                                    acacaaaacagtgggttacttaacatagaggTATAAGTCGTACTGTTGTGTTGGGTGGATTTCAATCTGTTAAAAAGGTTTGCGCTACGCTAGCAAGCAAAAAGGAAGCAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATaa                                 <  2:157709‑M2/118‑1 (MQ=255)                                                                                                                    acacaaaacacttaattctttaacttatattGATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTGTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATaa                                 <  2:430190‑M2/118‑1 (MQ=255)                                                                                                                        aaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGtt                                                  <  2:34061‑M2/101‑1 (MQ=255)                                                                                                                        aaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGtt                                                  >  1:34061‑M2/28‑128 (MQ=255)                                                                                                                        aaaacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCa                             <  1:157186‑M2/122‑1 (MQ=255)                                                                                                                          aacactcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCAcc                           >  1:57543‑M2/26‑149 (MQ=255)                                                                                                                             actcaattacttaacataaatgTATAAGTCATACTTTTGTATTGGGTGTATTTCAATATGTTAGAAAGTTTTTCGCTACGCAAGCAAGCAAAAATGAAACAGGAATAATCGAACTGGGATGTTGCTAACAGCCCAAATAACGCCCCGTa                        >  2:606675‑M2/23‑149 (MQ=255)                                                                                                                               tcaattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTaaa                      >  1:551551‑M2/21‑149 (MQ=255)                                                                                                                                caattacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAaat                     >  1:607334‑M2/20‑149 (MQ=255)                                                                                                                                  attacttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAaataa                   <  1:253626‑M2/132‑1 (MQ=255)                                                                                                                                      cttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAatcat               <  1:449300‑M2/136‑1 (MQ=255)                                                                                                                                       ttaacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCCCAGTCAAAATAACTCACCGTAAATAatcatc              >  1:474502‑M2/13‑149 (MQ=255)                                                                                                                                         aacataaatgTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGAGCAAGATGAAATTAACTGACCGTAAATAATCATCTg            >  2:963337‑M2/11‑149 (MQ=255)                                                                                                                                            aTAAAAGTATAAGTCATACTTTTATTATGGGTGTATTTCAATCTGTTAAAAAGTTATTCGCTACGCTAGCAAGCAAAAATCAAACAGGAATAAACCAAATAGCATGTTGCGCATAATCAAAATAACCCACCCTAAATAATCATCTGcca         <  2:406657/149‑3 (MQ=255)                                                                                                                                                   tataAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCACGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCGCCGTAAATAATCATCTGCCataaataa  >  1:350216/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                     TGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAA  >  NC_000913_3_bme_pgi/1979133‑1979427

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: ‑