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	65 [0]	[0] 66	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)	60 (1.160)	44/268	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

GGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCG  >  NC_000913/1978361‑1978643                                                                                                                                              |                                                                                                                                              gggTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCGGATCACACTTCACCCTCATTTACTTAGCATAAATGt                                                                                                                                              >  2:250503‑M1/1‑142 (MQ=255)   gTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtat                                                                                                                                            <  1:845771‑M1/143‑4 (MQ=255)   gTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtat                                                                                                                                            >  2:837091‑M1/1‑140 (MQ=255)           acTTATCTAAGATTTTTCCTACATCGACGCAACCGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACCTAGATGtctcagtcatc                                                                                                                                    >  1:180299‑M1/1‑132 (MQ=255)           acTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACGACGGAGGGGGGCTGCGGTTTTCAATAATGCGGGATGCAGATCACACAGAACACTCAATTACTAAACATGAATGtataagtcata                                                                                                                                    >  1:528137‑M1/1‑132 (MQ=255)           acTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcata                                                                                                                                    >  2:77869‑M1/1‑132 (MQ=255)             ttATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAACTGtataagtcatact                                                                                                                                  >  2:157832‑M1/1‑130 (MQ=255)                tCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTCACATAAATGtataagtcatactttt                                                                                                                               >  2:735367‑M1/1‑127 (MQ=255)                  tAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgt                                                                                                                             >  2:901080‑M1/1‑125 (MQ=255)                  tAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgt                                                                                                                             >  2:729716‑M1/1‑125 (MQ=255)                  tAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgt                                                                                                                             >  2:683866‑M1/1‑125 (MQ=255)                   aaGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACGAGACACTCAATTAATTAACATAAATGtataagtcatacttttgtt                                                                                                                            >  1:9050‑M1/1‑124 (MQ=255)                   aaGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactcttgat                                                                                                                            >  1:342210‑M1/1‑124 (MQ=255)                       tttttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGCGGGGGTCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatactttctttttgc                                                                                                                        >  1:518569‑M1/1‑120 (MQ=255)                       tttttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAACACACCCAATTTCGTTACATAAATGtataagtcatacttttgttttgg                                                                                                                        <  2:654218‑M1/143‑24 (MQ=255)                       tttttCCCAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgg                                                                                                                        <  2:408631‑M1/143‑24 (MQ=255)                       ttgttcttAGATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgg                                                                                                                        <  1:485094‑M1/140‑24 (MQ=255)                        ttttCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtatcagtcatacttctgttttggg                                                                                                                       >  2:465084‑M1/1‑119 (MQ=255)                             cTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtat                                                                                                                  >  2:236230‑M1/1‑114 (MQ=255)                             cTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacatttgttttgggtgtat                                                                                                                  >  1:940108‑M1/1‑114 (MQ=255)                               aaaTCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtattt                                                                                                                <  2:720711‑M1/143‑32 (MQ=255)                                   cGACGCTACTGTACTCGTCACTACATGCACCTACAACGGAGGGGGGCTGGGATTTTCAATAATGCGTGATGCAGATCACAGAAAACAATCAACTATGTATCATGAGGGtataagtcatacttttgttttgggtgtatttcaat                                                                                                            <  2:404188‑M1/143‑36 (MQ=255)                                           cTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAACCAACCAATGACTTAACATAGATGtataagtcatacttttgttttgggtgtatttcaatctgttaaa                                                                                                    >  2:130571‑M1/1‑100 (MQ=255)                                               aCTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagt                                                                                                >  1:741213‑M1/1‑96 (MQ=255)                                                 tCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgcattggttgtatttcaatctgttaaaaagttt                                                                                              >  1:8452‑M1/1‑94 (MQ=255)                                                 tCGGCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaatttt                                                                                              <  2:315532‑M1/143‑50 (MQ=255)                                                  cGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttt                                                                                             >  2:526386‑M1/1‑93 (MQ=255)                                                             gCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcacactgttaaaaagattttagttagcata                                                                                  >  1:132642‑M1/1‑82 (MQ=255)                                                             gCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgttacgcta                                                                                  >  2:272166‑M1/1‑82 (MQ=255)                                                               acaTACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagc                                                                                >  2:215289‑M1/1‑80 (MQ=255)                                                                 aTACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaa                                                                              <  2:698149‑M1/143‑66 (MQ=255)                                                                  tACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgttagcgag                                                                             >  2:936627‑M1/1‑77 (MQ=255)                                                                       cGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaa                                                                        <  2:103718‑M1/143‑72 (MQ=255)                                                                        ggAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAACTGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaa                                                                       <  1:658691‑M1/143‑73 (MQ=255)                                                                          aGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatg                                                                     <  1:662260‑M1/143‑75 (MQ=255)                                                                                gCTGCGATTTTCACTAATGCGTGATGCAGATCAAACAAAACTATCAATTACTTATCATTATTGtataagttatttttttgtgttgggtttatttcaatctgttaaaaagttgttcgctacgctagcaagcaaaaatgaaacag                                                               <  2:384898‑M1/143‑81 (MQ=255)                                                                                gCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacag                                                               >  2:535842‑M1/1‑63 (MQ=255)                                                                                  tGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacagga                                                             >  2:110690‑M1/1‑61 (MQ=255)                                                                                  tGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacagga                                                             >  2:190686‑M1/1‑61 (MQ=255)                                                                                     gATTTTCAATAATGCGTGATGCAAATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaata                                                          <  1:405561‑M1/143‑86 (MQ=255)                                                                                         ttCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgatacgctagcaagcaaaaatgaaacaggaataatcg                                                      >  1:824427‑M1/1‑54 (MQ=255)                                                                                            aataatGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaa                                                   <  1:735367‑M1/143‑93 (MQ=255)                                                                                             ataatGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaat                                                  <  2:518569‑M1/143‑94 (MQ=255)                                                                                               aatGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtatcagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgg                                                >  2:86350‑M1/1‑48 (MQ=255)                                                                                               aatGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgcaatgg                                                >  2:506184‑M1/1‑48 (MQ=255)                                                                                                       atacaaagcacacaaaaccctcAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgc                                        <  2:377046‑M1/135‑104 (MQ=255)                                                                                                       aTGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggcataatcgaaatggtatgttgc                                        >  2:589065‑M1/1‑40 (MQ=255)                                                                                                       aTGCAGATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgcaatgggatgttgc                                        >  1:227041‑M1/1‑40 (MQ=255)                                                                                                            gATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcaca                                   <  1:837091‑M1/143‑109 (MQ=255)                                                                                                            gATCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcaca                                   >  1:212219‑M1/1‑35 (MQ=255)                                                                                                             aTCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaatatgaaacaggaataatcgaaatgggatgttgcgaacag                                  >  1:716978‑M1/1‑34 (MQ=255)                                                                                                             aTCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgacacaggaataatcgaaatgggatgttgcgcacag                                  >  1:51921‑M1/1‑34 (MQ=255)                                                                                                             aTCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacag                                  >  2:67590‑M1/1‑34 (MQ=255)                                                                                                             aTCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacag                                  >  1:464957‑M1/1‑34 (MQ=255)                                                                                                             aTCACACAAAACACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaataaagcaggaataatcgcaatgggatgttgcgccacg                                  >  1:57183‑M1/1‑34 (MQ=255)                                                                                                                acacaAAACACTCCATTACTGAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaagagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtca                               <  1:175368‑M1/143‑113 (MQ=255)                                                                                                                    aaaaCACTCAATTACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaat                           <  1:77869‑M1/143‑117 (MQ=255)                                                                                                                                tACTTAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagttgaagggaaacaggaataatcgaaatgggatgtggcgcacagtcaaaataaatcagcgtaa               >  2:743047‑M1/1‑15 (MQ=255)                                                                                                                                   ttAACATAAATGtataagtcatactttagttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactaaccgtaaata            >  2:930337‑M1/1‑12 (MQ=255)                                                                                                                                    tAACATAAATGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataa           >  1:434629‑M1/1‑11 (MQ=255)                                                                                                                                           aaTGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctg    >  1:375721‑M1/1‑4 (MQ=255)                                                                                                                                           aaTGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctg    >  1:616176‑M1/1‑4 (MQ=255)                                                                                                                                           aaTGtataaattatatttttgttttgggtttatttcaatctgttaaaaagtttttcgctactcaagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctg    <  1:766189‑M1/143‑140 (MQ=255)                                                                                                                                            aTGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaaaaataattagc   >  2:640184‑M1/1‑3 (MQ=255)                                                                                                                                             tGtataagtcatacttttgttttgggtgtatttcaatctgttaaaaagtttttcgctacgctagcaagcaaaaatgaaacaggaataatcgaaatgggatgttgcgcacagtcaaaataactcaccgtaaataatcatctgct  <  1:361798‑M1/143‑142 (MQ=255)                                                                                                                                              |                                                                                                                                              GGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCG  >  NC_000913/1978361‑1978643

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: ‑