Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	1,299,499	Δ1,199 bp	intergenic (+254/‑485)	ychE → / → oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	1299499–1300697	1300697	1–1199	55 [0]	[0] 56	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1299498	0 (0.000)	54 (1.230)	44/274	0.1	100%	intergenic (+253/‑1684)	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
	?	NC_000913	1300698 =	0 (0.000)					intergenic (+1453/‑484)	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein

ACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCT  >  NC_000913/1299361‑1299639                                                                                                                                          |                                                                                                                                              gcaGTGAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataat                                                                                                                                          <  2:154727‑M1/142‑6 (MQ=255)     ttcgttataaGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatc                                                                                                                                      <  1:702553‑M1/140‑10 (MQ=255)           ataAGGATTTCCTTAACTGCTTCTCCTCACCATTTTGTTATCACCGCCACACCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTATTTCCACTGCCTTTGTTAGTGGCAAGTGCTAAataataaccatcctt                                                                                                                                >  2:590240‑M1/1‑128 (MQ=255)            taAGGATTTCCTTAACTGCTTCTCCTCAGCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgtt                                                                                                                               >  2:60882‑M1/1‑127 (MQ=255)                gATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaat                                                                                                                           >  1:64394‑M1/1‑123 (MQ=255)                  tttCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaatta                                                                                                                         >  1:64029‑M1/1‑121 (MQ=255)                    gcctTCACTGCGTCTCCGCCGCAACATGGTACTCTCGCTACATCATAATCCTGGGGGTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAacaataatcaattgttaaattatt                                                                                                                       <  1:105902‑M1/142‑25 (MQ=255)                         aaCTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataataaattgttaaatgattgtgca                                                                                                                  >  1:43001‑M1/1‑114 (MQ=255)                           cTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataatactcaattgttaaattattgtgaatt                                                                                                                >  2:108920‑M1/1‑112 (MQ=255)                            tGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcattt                                                                                                               >  1:775550‑M1/1‑111 (MQ=255)                                 ctcctcACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcacta                                                                                                          <  2:766663‑M1/143‑38 (MQ=255)                                                   ttttCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaa                                                                                        >  1:351745‑M1/1‑88 (MQ=255)                                                   ttttCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcacgactgtaactgtaatcggaa                                                                                        >  1:141094‑M1/1‑88 (MQ=255)                                                    tttCGCCACCTCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaa                                                                                       <  1:660591‑M1/143‑57 (MQ=255)                                                        gCCACTTCATAATCCTGGGTTTGCTTAAGAATAATTGAAAAGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagat                                                                                   <  2:50598‑M1/143‑61 (MQ=255)                                                        gCCACACCATAAGCCTGGGCTTGATGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataagaatcaatggttaaattagtgtgcatttcactactggaactgtaatcagaaaagat                                                                                   <  1:331134‑M1/143‑61 (MQ=255)                                                         ccACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagata                                                                                  >  2:664810‑M1/1‑82 (MQ=255)                                                          cacaTCATAATCCTGGGCGTGCTGAAGAATAATTGGAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatag                                                                                 <  2:342080‑M1/143‑63 (MQ=255)                                                            catcatAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagac                                                                               <  1:307655‑M1/143‑65 (MQ=255)                                                                atAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTACataataatcaattgttaaattattgtgcatttcgctactggaactgtaatcagaaacgatagacatgc                                                                           >  1:758235‑M1/1‑75 (MQ=255)                                                                 tAATCCTGGGCTTGCTGAAGGATAATGGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgct                                                                          >  2:504343‑M1/1‑74 (MQ=255)                                                                 tAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTGATTCCACTGCAGTTGGTAGAGGAAAGTGATAAttaataatcaattgttaaattattgtgcatttaactactggacaggtaattagaaaagatagaaatact                                                                          >  2:382251‑M1/1‑74 (MQ=255)                                                                 tAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgct                                                                          >  2:825957‑M1/1‑74 (MQ=255)                                                                     ccTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagc                                                                      >  2:36037‑M1/1‑70 (MQ=255)                                                                     ccTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagc                                                                      <  2:700856‑M1/143‑74 (MQ=255)                                                                         ggCGTGCGGAAGAAGAAGTGAAATGAGATTATACACTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataagaatcaattgttaaataactgtgctgtccactactggaactgtaatcagaaaagatagacatgcttagccaat                                                                  <  2:176760‑M1/143‑78 (MQ=255)                                                                              gttgaAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctcta                                                             <  1:44881‑M1/141‑83 (MQ=255)                                                                               cTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAatattaatcaattgttaaattattgtgtatttcactactggaactgtaatcagaaaggatagacatgcttagccaatctctat                                                            <  2:789844‑M1/143‑84 (MQ=255)                                                                                tGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatt                                                           >  2:137241‑M1/1‑59 (MQ=255)                                                                                  aagaaTAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcattactggaactgtaatcagaacggatccttatgcttagccaatctctatttg                                                         >  1:738005‑M1/1‑57 (MQ=255)                                                                                  aagaaTAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttg                                                         >  1:771365‑M1/1‑57 (MQ=255)                                                                                   agaaTAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttga                                                        <  1:399476‑M1/143‑88 (MQ=255)                                                                                    gaaTAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgat                                                       <  1:452644‑M1/143‑89 (MQ=255)                                                                                            gAAATTGTATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattga                                               <  2:195875‑M1/143‑97 (MQ=255)                                                                                                tGATATTATTAATGCCACTGCGTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaaga                                           <  2:655275‑M1/143‑101 (MQ=255)                                                                                                     ttattaCTTCCCCTGCCTTTGGTAGAGGAAAGTTCTAAataataaccaattgttaaattattctgcatttcactactggaactttaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgttt                                      <  1:241115‑M1/143‑106 (MQ=255)                                                                                                     ttattaATTCCACTTCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgttt                                      <  1:5649‑M1/143‑106 (MQ=255)                                                                                                     ttattaATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgttt                                      >  1:740810‑M1/1‑38 (MQ=255)                                                                                                     ttattaATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgttt                                      <  1:423260‑M1/143‑106 (MQ=255)                                                                                                      tattaATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactcctggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttg                                     >  1:92949‑M1/1‑37 (MQ=255)                                                                                                      tattaATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttg                                     >  1:486724‑M1/1‑37 (MQ=255)                                                                                                        ttaATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgtt                                   >  1:493431‑M1/1‑35 (MQ=255)                                                                                                           aTTCCACTGCCTTTGGTTGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttaactagtgggactgtaatcagaaaagatagacatgcttagccaatgtctattggattgaattgaaagaggtttgttaag                                >  2:260402‑M1/1‑32 (MQ=255)                                                                                                             tCCACTGCCTTTGGTAGAGGAAAGTGCTAAatagtaatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggc                              <  2:365401‑M1/143‑114 (MQ=255)                                                                                                                aCTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatg                           >  2:270310‑M1/1‑27 (MQ=255)                                                                                                                aCTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatg                           >  1:815179‑M1/1‑27 (MQ=255)                                                                                                                 cTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatgg                          >  1:739747‑M1/1‑26 (MQ=255)                                                                                                                     cTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcacttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgcttgagttgaaagatgtttgttaaggcatggatgc                      >  2:693145‑M1/1‑22 (MQ=255)                                                                                                                      tttGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgca                     >  2:148314‑M1/1‑21 (MQ=255)                                                                                                                       ttGGGAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaa                    <  1:771947‑M1/143‑124 (MQ=255)                                                                                                                          gTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatggttagacaatctctatttgattgaattgagagatgtttgttaagggatggatgcaagct                 >  1:182729‑M1/1‑17 (MQ=255)                                                                                                                          gTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagct                 >  1:105013‑M1/1‑17 (MQ=255)                                                                                                                           tAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagcta                >  1:704841‑M1/1‑16 (MQ=255)                                                                                                                                  aaGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattc         <  2:815179‑M1/143‑135 (MQ=255)                                                                                                                                         aaagaataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacg  <  1:730873‑M1/143‑142 (MQ=255)                                                                                                                                          |                                                                                                                                              ACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCT  >  NC_000913/1299361‑1299639

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: ‑