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	1978503–1979268	1979278	11–776	47 [0]	[0] 47	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)	46 (1.330)	38/268	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

GTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATG  >  NC_000913/1978363‑1978640                                                                                                                                            |                                                                                                                                           gTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtat                                                                                                                                         <  1:637933‑M1/143‑4 (MQ=255)  tCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtata                                                                                                                                        >  1:505528‑M1/1‑139 (MQ=255)  tCTTTACACTTATCTAAGATCTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGAGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtata                                                                                                                                        <  2:276410‑M1/143‑5 (MQ=255)   cTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataa                                                                                                                                       <  2:504110‑M1/143‑6 (MQ=255)   cTTTACACTTATCTAAGATTTGGCCCAAAGCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataa                                                                                                                                       <  1:387520‑M1/143‑6 (MQ=255)              tcgaagatTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactttt                                                                                                                            <  2:324223‑M1/140‑17 (MQ=255)              tCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactttt                                                                                                                            <  1:433980‑M1/143‑17 (MQ=255)              tCTAAGATTTGTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactttt                                                                                                                            <  2:452369‑M1/143‑17 (MQ=255)               cgaagaTTTTTCGTGAATCGACGCGGCTGGAGTCGTCAGTACACGCACGTACGGCGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactgttg                                                                                                                           <  2:28491‑M1/141‑18 (MQ=255)                   gATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTGTCAATAATGCGTAATCCACATCACACAAAACACTCAATTACTTAACATCAATGtataagtcatacttttgcttt                                                                                                                       >  2:365391‑M1/1‑122 (MQ=255)                     tttttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGTGTGATGCAGAACACAATAAACACTAAATTACTTAACATAAATGtataagtcatacttttgttttgg                                                                                                                     >  1:248962‑M1/1‑120 (MQ=255)                     tttttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgg                                                                                                                     <  2:316092‑M1/143‑24 (MQ=255)                          ccTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgta                                                                                                                <  1:275404‑M1/143‑29 (MQ=255)                            tAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatt                                                                                                              >  1:567177‑M1/1‑113 (MQ=255)                             aaaTCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgctttgggtgcattt                                                                                                             >  2:56688‑M1/1‑112 (MQ=255)                               aTCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgtcttgggtgtatttcc                                                                                                           >  1:31147‑M1/1‑110 (MQ=255)                                  gACGCAACTGTACTCGTCACTACACGCACATACAACGGAGACAGGCTGCGATTTTCAATAACGCGCGAGCCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatc                                                                                                        <  1:217727‑M1/143‑37 (MQ=255)                                      cAACTGTTCGCGTCCCTACACACACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgtt                                                                                                    <  1:88683‑M1/143‑41 (MQ=255)                                       aaCTGCACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgtta                                                                                                   >  1:273648‑M1/1‑102 (MQ=255)                                          tGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACATAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaa                                                                                                >  2:355393‑M1/1‑99 (MQ=255)                                          tGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACCCTCAATTACTTAACATAAATGtataagtcatacttctgttttggctgtatttacatgtgttaaaa                                                                                                >  2:381332‑M1/1‑99 (MQ=255)                                           gTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgctttgggtgtatttcaatctgttacaaa                                                                                               >  1:632798‑M1/1‑98 (MQ=255)                                               tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATCCGTGATGCAGATCACACAAAACACTCAATTACTTAACATACATGcaaaagtcatacttttgttttgggtgtatttcaatctgttaaaaagttt                                                                                           >  2:656042‑M1/1‑94 (MQ=255)                                                  tCACTACACGGACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTTATTTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttc                                                                                        <  2:84611‑M1/143‑53 (MQ=255)                                                      tagacccacatacaacGGAGGGGGGCTGCGATTTTCAATAATGAGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgcta                                                                                    <  2:239113‑M1/137‑57 (MQ=255)                                                          cgctcctacatcgGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACTTAAATCtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgct                                                                                <  2:79880‑M1/137‑61 (MQ=255)                                                                tACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtcacatgcgctcaggtaaaaagtttttcgctacgctagcaag                                                                          >  2:294896‑M1/1‑77 (MQ=255)                                                                 aCAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgtggttggagtatttcaatctgttaaaaagtttttcgccacgctagcaagc                                                                         >  1:125692‑M1/1‑76 (MQ=255)                                                                 aCAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactattgttttgggtgtatttcaatctgataaaaagtttttcgctacgctagcaagc                                                                         >  2:54001‑M1/1‑76 (MQ=255)                                                                      ggAGGGGGGCTGCGATTTTTAATATGTCGTGATGAAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaa                                                                    <  2:537402‑M1/143‑73 (MQ=255)                                                                           ggggCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaa                                                               <  1:574780‑M1/143‑78 (MQ=255)                                                                                            taagGCGTGATGCTGATCACACAAAACCCTCAATTACTTACCATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatg                                              <  1:629974‑M1/143‑95 (MQ=255)                                                                                             catgCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttatgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgg                                             <  1:538974‑M1/142‑96 (MQ=255)                                                                                                     aTGCAGATCACACAAAACACTCAGTTACGTAACGTAAAGGtgtaagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaaaaggtataatcgaaatgggatgttgc                                     <  2:554679‑M1/143‑104 (MQ=255)                                                                                                        cAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgca                                  <  1:358251‑M1/143‑107 (MQ=255)                                                                                                           aTCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacag                               <  1:173901‑M1/143‑110 (MQ=255)                                                                                                                 caAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaa                         <  2:273648‑M1/143‑116 (MQ=255)                                                                                                                     tcacttcattaattaacataaaTGtataagtcatacttttgttttgggtggatttcaatctgttaaaaagtggttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataac                     <  1:374769‑M1/136‑120 (MQ=255)                                                                                                                         tCAATTGCTTAACATAAATGtataagtcatactgttgttttgggtgtatttcaatctgttaaagagtttttcgctacgctagcaagcaaaaatgaaacaggaatagtcgaaatgggaggtggcacacagtcaaaataagtcgc                 >  2:317361‑M1/1‑20 (MQ=255)                                                                                                                         tCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatggggtgttgcgcacagtcgaaataactcac                 >  1:200698‑M1/1‑20 (MQ=255)                                                                                                                         tCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcac                 >  1:389826‑M1/1‑20 (MQ=255)                                                                                                                          cAATTACTTAACATAAATGtataagttatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacggtagcaagcaaaaatgaaacaggaataatcgaaaagggatgttgcgcacagtcaaaataactcacc                >  2:551719‑M1/1‑19 (MQ=255)                                                                                                                          cAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcacc                <  1:296644‑M1/143‑125 (MQ=255)                                                                                                                           aaTTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccg               >  1:499446‑M1/1‑18 (MQ=255)                                                                                                                                 ttAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaactttctctctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgctcacagtcaaaatacctcaccgtaaata         >  2:451678‑M1/1‑12 (MQ=255)                                                                                                                                  tAAAATAAATGtataagtcatacttttgttttgcgtgtatttcaatctgttaaaaagtttttcgttacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataa        <  1:548837‑M1/143‑133 (MQ=255)                                                                                                                                        aaaTGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatct  <  1:513040‑M1/143‑139 (MQ=255)                                                                                                                                            |                                                                                                                                           GTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATG  >  NC_000913/1978363‑1978640

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: ‑