Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	1,299,499	Δ1,199 bp		insH21	insH21

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	1299499–1300693	1300697	5–1199	60 [0]	[0] 60	insH21	insH21

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1299498	0 (0.000)	59 (1.410)	51/272	0.0	100%	intergenic (+253/‑33)	ychE/insH21	putative inner membrane protein/IS5 transposase and trans‑activator
	?	NC_000913	1300698 =	0 (0.000)					intergenic (+151/‑484)	insH21/oppA	IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein

ATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATAC  >  NC_000913/1300557‑1300837                                                                                                                                              |                                                                                                                                             attacagttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaat                                                                                                                                             <  2:10769‑M2/2‑1 (MQ=255)      agttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaataataa                                                                                                                                        <  1:284606‑M2/7‑1 (MQ=255)        ttagttagaagcacttccttaactgctgctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATc                                                                                                                                      <  1:74478‑M2/9‑1 (MQ=255)            ttataatgatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattcccctccctttcgtagaggaaagtgctaaATAATAATCAAtt                                                                                                                                  <  2:59209‑M2/13‑1 (MQ=255)            ttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAAtt                                                                                                                                  >  1:405275‑M2/131‑143 (MQ=255)            ttataaggatttccttaacggcttctcctcgccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAAtt                                                                                                                                  <  2:521003‑M2/13‑1 (MQ=255)             tataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattacactgcctttggtagaggaaagtgctaaATAATAATCAATTg                                                                                                                                 >  2:158106‑M2/130‑143 (MQ=255)               taagtatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGtt                                                                                                                               <  2:343291‑M2/16‑1 (MQ=255)                aagactttccgtaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATCGTTa                                                                                                                              >  2:533332‑M2/127‑143 (MQ=255)                 tggatttccttaactgctgctcctctccatcatgtttttttcgtcacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTaa                                                                                                                             <  2:386844‑M2/18‑1 (MQ=255)                 aggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTaa                                                                                                                             >  1:514975‑M2/126‑143 (MQ=255)                  ggatttccttaactgctgctcgtcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTaaa                                                                                                                            <  1:495926‑M2/19‑1 (MQ=255)                   gatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAat                                                                                                                           >  1:664706‑M2/124‑143 (MQ=255)                     tttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCACTTGTTAAatta                                                                                                                         >  2:136687‑M2/122‑143 (MQ=255)                          ttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑Ttgtg                                                                                                                   <  1:156626‑M2/27‑1 (MQ=255)                               tgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCAttt                                                                                                              <  2:412362‑M2/32‑1 (MQ=255)                                 cttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataatttaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCa                                                                                                            <  1:363678‑M2/34‑1 (MQ=255)                                      cctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCactact                                                                                                       >  2:342998‑M2/105‑143 (MQ=255)                                        tcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTgg                                                                                                     >  1:527173‑M2/103‑143 (MQ=255)                                        tcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaACAATAATCAATTGTTAAATTATTTGTGCATTTCACTACTg                                                                                                      >  1:33099‑M2/103‑143 (MQ=255)                                          accatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGaa                                                                                                   <  1:240971‑M2/43‑1 (MQ=255)                                          accatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTAACTACTGGaa                                                                                                   >  1:133146‑M2/101‑143 (MQ=255)                                            catcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACt                                                                                                 <  1:431019‑M2/45‑1 (MQ=255)                                                     attttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattctactgcctttgctagcggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGa                                                                                        >  1:219143‑M2/90‑143 (MQ=255)                                                          cgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGa                                                                                   <  1:363928‑M2/59‑1 (MQ=255)                                                             cacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAg                                                                                <  1:196188‑M2/62‑1 (MQ=255)                                                              acatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGa                                                                                   >  2:279795‑M2/81‑139 (MQ=255)                                                              acatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGa                                                                                   <  1:279795‑M2/59‑1 (MQ=255)                                                              acatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGa                                                                               >  1:624632‑M2/81‑143 (MQ=255)                                                               catcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGAc                                                                              <  1:86537‑M2/64‑1 (MQ=255)                                                                atcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGACAAGATAGACa                                                                             >  1:335477‑M2/79‑143 (MQ=255)                                                                  cataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATg                                                                           >  1:423732‑M2/77‑143 (MQ=255)                                                                      atcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTa                                                                       <  1:236877‑M2/71‑1 (MQ=255)                                                                       ttctgggcctgctgaataataattgaaatgatattattaattccactggctttggtagaggaaagtgctaaATAATAATCAATTGTTAAGTTA‑TTGTTCTTTTCACTACCGGAACTGTAATCAGAAAAGATAGACATGCTTAg                                                                      <  2:570450‑M2/72‑1 (MQ=255)                                                                       tcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAg                                                                      <  1:513718‑M2/72‑1 (MQ=255)                                                                         ctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGcc                                                                    >  1:799385‑M2/70‑143 (MQ=255)                                                                                  ctgaagaataattgaaatgatattattaattccactgcctctggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTAt                                                           <  1:390878‑M2/83‑1 (MQ=255)                                                                                        aataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATttgatt                                                     <  2:405275‑M2/89‑1 (MQ=255)                                                                                        aataattgaaatgatatcattaattccacttcctttggtagaggaaagtgctaaATAATAATCGATTGTGAAATTA‑TTGGGCATTTCACGACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATttgatt                                                     <  2:215628‑M2/89‑1 (MQ=255)                                                                                          taattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATttgattga                                                   <  2:113044‑M2/91‑1 (MQ=255)                                                                                          taattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATttgattga                                                   >  1:309943‑M2/53‑143 (MQ=255)                                                                                             ttgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTCTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAACCAGAAAAGCTAGACATGCTTAGCCAATCTCTATTTaagtgaata                                                >  1:453336‑M2/50‑142 (MQ=255)                                                                                               gaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCCGAAAAGATAGCCATGCTTAGCCAATCTCTATTTGattgaattga                                              >  2:606023‑M2/48‑143 (MQ=255)                                                                                               gaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGattgaattga                                              <  1:785846‑M2/96‑1 (MQ=255)                                                                                                aaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGAttgaattgaa                                             <  2:16598‑M2/97‑1 (MQ=255)                                                                                                        ttattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCCCTATTTGATTGAATTGAAAGAtgttt                                     >  1:630895‑M2/39‑143 (MQ=255)                                                                                                        gtataaattcgacggcctttggtagaggaaagtgctaaATAATAATGAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGAtgttt                                     <  2:579453‑M2/105‑1 (MQ=255)                                                                                                          attaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGAtgtttgt                                   >  1:703420‑M2/37‑143 (MQ=255)                                                                                                            taattccactgtctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTa                                 <  2:704511‑M2/109‑1 (MQ=255)                                                                                                             aaatccactgccgttgctagtgtaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTTACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTaa                                <  2:3788‑M2/110‑1 (MQ=255)                                                                                                                  cactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGCCAt                           >  1:77347‑M2/29‑143 (MQ=255)                                                                                                                  cactgcctttggtagaggaaaatgataaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCACTATTTGATTAAATAGAAAGATGtatattacaacat                           >  2:437597‑M2/29‑137 (MQ=255)                                                                                                                   actgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGTACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATg                          >  2:625141‑M2/28‑143 (MQ=255)                                                                                                                   actgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAAGTA‑TTGTTCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATg                          <  2:276187‑M2/116‑1 (MQ=255)                                                                                                                         tttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGGTTGATAAGGCATGGATGCa                    >  1:136582‑M2/22‑143 (MQ=255)                                                                                                                          ttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCaa                   <  2:423732‑M2/123‑1 (MQ=255)                                                                                                                                  gcaaattgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTTTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGa           <  2:263420‑M2/131‑1 (MQ=255)                                                                                                                                      agtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCt       <  2:771258‑M2/135‑1 (MQ=255)                                                                                                                                       gtgctaaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTg      <  1:654993‑M2/136‑1 (MQ=255)                                                                                                                                           taaATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATAc  >  2:565020‑M2/4‑143 (MQ=255)                                                                                                                                              |                                                                                                                                             ATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATAATAATCAATTGTTAAATTA‑TTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATAC  >  NC_000913/1300557‑1300837

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: ‑