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	59 [0]	[0] 59	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)	57 (1.140)	47/266	0.0	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

TGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCC  >  NC_000913/1978360‑1978642                                                                                                                                               |                                                                                                                                             tGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATG                                                                                                                                              >  2:790821‑M1/1‑143 (MQ=255)     tCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtata                                                                                                                                          >  2:483165‑M1/1‑139 (MQ=255)         tACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtc                                                                                                                                      <  2:833808‑M1/143‑9 (MQ=255)                 tCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactttt                                                                                                                              <  1:862575‑M1/143‑17 (MQ=255)                   tAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAGCATAACTGtataagtcatcctttggg                                                                                                                            >  1:314010‑M1/1‑125 (MQ=255)                   tAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAAAACTCAATTACTTAACATAAATGtataagtcatacttttgt                                                                                                                            >  2:15217‑M1/1‑125 (MQ=255)                   tAAGATGATTCTTAAATCGACGCAACTGTACTCGTCACTACACGCACAGACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAATCTCTCAATTACTTAACATAAATGtataagtcatactgttgt                                                                                                                            <  2:438060‑M1/143‑19 (MQ=255)                      gATTTTTCCTAACGCTACGCTGCTGTCCTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgtttt                                                                                                                         <  2:868426‑M1/143‑22 (MQ=255)                       aTTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttg                                                                                                                        <  1:870116‑M1/143‑23 (MQ=255)                        tttttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgg                                                                                                                       <  1:102255‑M1/143‑24 (MQ=255)                        tttttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgg                                                                                                                       <  1:232017‑M1/143‑24 (MQ=255)                            tCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATACATCcccaccccatatttttgttttgggtgt                                                                                                                   >  1:383007‑M1/1‑116 (MQ=255)                              cTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtgt                                                                                                                 >  2:26164‑M1/1‑114 (MQ=255)                                aagtcgaCGCAACGGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtattt                                                                                                               <  1:499070‑M1/140‑32 (MQ=255)                                    cGACTCAACGGTTCTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATACAGATCACACAAAACTCGTAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaat                                                                                                           <  2:864090‑M1/143‑36 (MQ=255)                                     gACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatc                                                                                                          <  2:810057‑M1/143‑37 (MQ=255)                                        gcacgtgtactCGGCACGACACGCGCATACAAGGGGGGGGGGCTGCGATTTTCACTAATGCGTGATGCAGATCACACAAAACTCTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatctccatctgt                                                                                                       <  2:712995‑M1/138‑40 (MQ=255)                                           aCTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCCGATCACCCAAAACACTCAATTACTGAACATAAATGtataagtgataattgtgttttggatgtatctccatctctcaa                                                                                                    >  2:198713‑M1/1‑101 (MQ=255)                                              gTACTCGTTACGACACGGCCATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAGTTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaa                                                                                                 <  2:27927‑M1/143‑46 (MQ=255)                                                  tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagttt                                                                                             >  1:527694‑M1/1‑94 (MQ=255)                                                  tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagttt                                                                                             >  1:527791‑M1/1‑94 (MQ=255)                                                  tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatataaatctgttaaaaagttt                                                                                             >  2:572605‑M1/1‑94 (MQ=255)                                                  tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttctgggtgtatttcaatctgttaaaaatttt                                                                                             >  2:251858‑M1/1‑94 (MQ=255)                                                    gTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtacaagtcatacttttgttttgggcctatttccttctgctaacaagtcttt                                                                                           >  1:401370‑M1/1‑92 (MQ=255)                                                    gTCACCACACGCACATACACAGGGGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagttttt                                                                                           <  1:580050‑M1/143‑52 (MQ=255)                                                         tACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgcta                                                                                      <  1:287496‑M1/143‑57 (MQ=255)                                                              gCACTTACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgcta                                                                                 <  1:887203‑M1/143‑62 (MQ=255)                                                              gCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgcta                                                                                 <  2:71249‑M1/143‑62 (MQ=255)                                                              gCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgcta                                                                                 <  1:144596‑M1/143‑62 (MQ=255)                                                                acaTACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagc                                                                               >  1:332502‑M1/1‑80 (MQ=255)                                                                      aaCGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaa                                                                         >  2:806024‑M1/1‑74 (MQ=255)                                                                       aCGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaa                                                                        >  1:157943‑M1/1‑73 (MQ=255)                                                                        cGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaa                                                                       <  1:125862‑M1/143‑72 (MQ=255)                                                                                ggCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACTCTCTATTACTTAACATTTATGtttaattcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaaca                                                               <  1:883985‑M1/143‑80 (MQ=255)                                                                                 gCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacag                                                              >  1:425909‑M1/1‑63 (MQ=255)                                                                                  cTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaacaatgaaacagg                                                             >  2:894015‑M1/1‑62 (MQ=255)                                                                                   tGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaatagtttttcgctatgctagcaagcaaatatgaaacagga                                                            >  2:534237‑M1/1‑61 (MQ=255)                                                                                   tGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataactcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctcgcaagcaaaaatgaaacagac                                                            >  1:176163‑M1/1‑61 (MQ=255)                                                                                     cGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttgaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaat                                                          >  2:626524‑M1/1‑59 (MQ=255)                                                                                        ttttTATTAATGCGTGATTTAGATCACACAAAACATTCAATTTCTTAACATAAATGtataagtcatacttttgttttgtgtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataat                                                       <  2:650762‑M1/143‑88 (MQ=255)                                                                                          ttCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcg                                                     <  2:293079‑M1/143‑90 (MQ=255)                                                                                             aataatGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcggtacgctagcaagcaaaaatgaaacaggaataatcgaaa                                                  >  1:416606‑M1/1‑51 (MQ=255)                                                                                             aataatGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaa                                                  >  1:641228‑M1/1‑51 (MQ=255)                                                                                                 atGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatggg                                              <  1:866264‑M1/143‑97 (MQ=255)                                                                                                 atGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctaagctagcaagcaaaactgaaacaggaataatcgaaatggg                                              >  1:607380‑M1/1‑47 (MQ=255)                                                                                                  tGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtagttcaatctgttaaaaagtttttcgctacgctagccagcaaaaatgaaacaggaataatcgaaatggga                                             >  1:533265‑M1/1‑46 (MQ=255)                                                                                                         tGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaagctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcg                                      <  1:105138‑M1/143‑105 (MQ=255)                                                                                                           cAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgcaacaggaataatcgaaatgggatgttgcgca                                    >  1:70473‑M1/1‑37 (MQ=255)                                                                                                              aTCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgctgcgaacag                                 >  2:850274‑M1/1‑34 (MQ=255)                                                                                                               tCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaacgttgtccgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagt                                >  1:127839‑M1/1‑33 (MQ=255)                                                                                                                   acaAAACACTCGATTACTTAACAGAAATGtataagtcatacttttgttttgggtgtatttcaagctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaa                            <  1:200205‑M1/143‑115 (MQ=255)                                                                                                                    caAAACACTCAATTACTTAACATTAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaa                           <  1:483165‑M1/143‑116 (MQ=255)                                                                                                                     aaaaCACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaaggggatgttgcgcacagtcaaaat                          >  1:290033‑M1/1‑27 (MQ=255)                                                                                                                                   cTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaat            <  1:367394‑M1/143‑131 (MQ=255)                                                                                                                                    ttAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaata           >  1:832726‑M1/1‑12 (MQ=255)                                                                                                                                    ttAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactaaccttaaata           >  2:435987‑M1/1‑12 (MQ=255)                                                                                                                                      aaCATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaacacaactcaccgtaaaaaat         >  2:238417‑M1/1‑10 (MQ=255)                                                                                                                                       aCATAAATGtataagtcatacttttgttttgggggtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatc        <  2:70400‑M1/143‑135 (MQ=255)                                                                                                                                             aTGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctgc  <  1:240573‑M1/143‑141 (MQ=255)                                                                                                                                               |                                                                                                                                             TGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCC  >  NC_000913/1978360‑1978642

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: ‑