Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	W3110S.gb	1140305	1140720	416	39 [0]	[0] 47	flgK	flagellar hook‑filament junction protein 1

CACCAGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCT  >  W3110S.gb/1140254‑1140304                                                   | caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:585237/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1005541/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:250768/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:255533/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:288070/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:342603/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:365434/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:480611/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:549100/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:550936/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:23460/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:614150/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:743040/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:74479/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:757199/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:75943/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:852145/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:936063/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:939687/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1336704/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1036865/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:104992/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1097496/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1149486/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1184316/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1228945/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1232356/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1296066/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:233962/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1348422/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1352096/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1403950/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1549568/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1599023/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:191721/51‑1 (MQ=255) caccaGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:209315/51‑1 (MQ=255)     aGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:878643/47‑1 (MQ=255)      gTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:1411894/46‑1 (MQ=255)             ttCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCt  <  1:353610/39‑1 (MQ=255)                                                   | CACCAGTACCTCTTCGCTGGCAACACAGATGCAGGATTTCTTCACCAGCCT  >  W3110S.gb/1140254‑1140304

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑