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	25 [0]	[0] 25	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)	25 (1.400)	20/124	0.0	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

GGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAAC  >  NC_000913/1299433‑1299556                                                                  |                                                           ttcttTCTGAAGTATAATTGAAATGATATTATTAATTCCACTGCCTTAGGTAGAGGAAAGTGCTAAat                                                          <  1:574847‑M1/66‑3 (MQ=255)  gCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAata                                                         >  1:5360‑M1/1‑65 (MQ=255)   cTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataa                                                        >  1:135843‑M1/1‑64 (MQ=255)              ataatTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGATAGTGCTAAataataatcaattgt                                             <  1:662830‑M1/68‑16 (MQ=255)               taatTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgtt                                            <  1:99823‑M1/68‑17 (MQ=255)               taatTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgtt                                            <  2:5360‑M1/68‑17 (MQ=255)                    gAAATTATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaatt                                       <  2:469707‑M1/68‑22 (MQ=255)                    gAAATGATATTATTAATTCTACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaatt                                       <  2:138284‑M1/68‑22 (MQ=255)                      aaTGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattat                                     <  2:336708‑M1/68‑24 (MQ=255)                         gATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgt                                  <  2:135843‑M1/68‑27 (MQ=255)                            attattAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgca                               <  1:103977‑M1/68‑30 (MQ=255)                                ttaATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttc                           >  1:456560‑M1/1‑35 (MQ=255)                                ttaATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttc                           <  2:35948‑M1/68‑34 (MQ=255)                                 taATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataataaattgttaaattattgtgcatttca                          >  2:309566‑M1/1‑34 (MQ=255)                                 taAATCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttca                          >  2:419521‑M1/1‑34 (MQ=255)                                   aTTCCACTTCCTTTTGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcact                        <  2:382475‑M1/68‑37 (MQ=255)                                    ttCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcacta                       >  2:472484‑M1/1‑31 (MQ=255)                                    ttCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcacta                       <  1:28480‑M1/68‑38 (MQ=255)                                    ttCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaatt                                               <  2:150117‑M1/44‑14 (MQ=255)                                    ttCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaatt                                               >  1:150117‑M1/1‑31 (MQ=255)                                        aCTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactgg                   >  2:381942‑M1/1‑27 (MQ=255)                                          tGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaa                 >  2:279937‑M1/1‑25 (MQ=255)                                              tttGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgttcatttcactactggaactgt             <  2:627712‑M1/68‑48 (MQ=255)                                                         aaaGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaag  <  2:456560‑M1/68‑59 (MQ=255)                                                         aaaGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaag  >  2:687445‑M1/1‑10 (MQ=255)                                                                  |                                                           GGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAAC  >  NC_000913/1299433‑1299556

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.