Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	CP009273	354,080	Δ9 bp	coding (314‑322/900 nt)	cynR ←	transcriptional activator of cyn operon; autorepressor

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	CP009273	354080	354088	9	39 [0]	[0] 40	cynR	transcriptional activator of cyn operon; autorepressor

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 354079	0 (0.000)	38 (0.670)	26/134	0.4	100%	coding (323/900 nt)	cynR	transcriptional activator of cyn operon; autorepressor
	?	CP009273	354089 =	0 (0.000)					coding (313/900 nt)	cynR	transcriptional activator of cyn operon; autorepressor

CTCCTGCGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGGGCCGATAAAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCGCGTCAGAT  >  CP009273/354012‑354142                                                                    |                                                                ctcCTGCGACATTACCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAgg                                                                 <  1:3904765/68‑1 (MQ=255)   ccTGCGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGTAATCCGCCATTAAGGag                                                               >  1:2268292‑M1/1‑66 (MQ=255)   ccTGCGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGag                                                               >  1:3161916‑M1/1‑66 (MQ=255)       cGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagc                                                           <  1:4626661‑M1/68‑7 (MQ=255)        gACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagct                                                          <  1:1477865‑M1/68‑8 (MQ=255)         aCATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctc                                                         <  1:5560413‑M1/68‑9 (MQ=255)         aCATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctc                                                         <  1:1686127‑M1/68‑9 (MQ=255)               ccTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaag                                                   <  1:5530543‑M1/68‑15 (MQ=255)               ccTGTAGCAGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaag                                                   <  1:5036911‑M1/68‑15 (MQ=255)                cTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaagg                                                  >  1:4794514‑M1/1‑53 (MQ=255)                 tGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggt                                                 >  1:3858040‑M1/1‑52 (MQ=255)                   tAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgg                                               <  1:87170‑M1/68‑19 (MQ=255)                     gCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaatgttggg                                             >  1:3167869‑M1/1‑48 (MQ=255)                     gCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggg                                             <  1:103552‑M1/68‑21 (MQ=255)                     gCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggg                                             >  1:79533‑M1/1‑48 (MQ=255)                     gCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggg                                             >  1:5540309‑M1/1‑48 (MQ=255)                     gCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggg                                             >  1:1686343‑M1/1‑48 (MQ=255)                     gCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggg                                             <  1:3441210‑M1/68‑21 (MQ=255)                      cTGGAGCGTGATGCTGTGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtggggg                                            >  1:4715922‑M1/1‑47 (MQ=255)                           gCGTGATGCTGGGATAGCGCGCATAGAAATCCGACATTAAGGagtagctcgtaaaggtgggggtgacg                                       >  1:144831‑M1/1‑42 (MQ=255)                            cGTGATGCTGGGATAGCGGGCATAGATATGCGCCATTAAGGagtagctcgtaacggtgggggtgacgg                                      >  1:5377751‑M1/1‑41 (MQ=255)                               gATGCTTGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggggtgacggcga                                   <  1:3324744‑M1/68‑31 (MQ=255)                               gATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggggtgacggcga                                   <  1:4746276‑M1/68‑31 (MQ=255)                               gATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggggtgacggcga                                   <  1:1557377‑M1/68‑31 (MQ=255)                                  gCTGGTATAGCGAGCATAGATATCCGACATTAAGGagtagctcgtaaaggttggggtgacggcgatac                                <  1:2639121‑M1/68‑34 (MQ=255)                                  gCTGGGATCGCGAGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggggtgacgccgatac                                <  1:3171341‑M1/68‑34 (MQ=255)                                    tGGGATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggggtgacggcgatacgc                              >  1:4423024‑M1/1‑33 (MQ=255)                                     gggATAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggggtgacggcgatacgca                             <  1:590020‑M1/68‑37 (MQ=255)                                        aTAGCGCGCATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggggtgacggcgatacgcagcg                          >  1:1291211‑M1/1‑29 (MQ=255)                                             gcgcATAGAAATCCGCCATTAAGGagtagctcgtaaaggtgggggtgacggcgatacgcagcgatcct                     >  1:4469608‑M1/1‑24 (MQ=255)                                               gcATAGAAATCCGCCATAAAGGagtagctcgtaaaggtgggggtgacggcgatacgcagcgatcctcg                   <  1:3013314‑M1/68‑47 (MQ=255)                                                 aTAGAATTCCGCCATTAAGGagtagctcgtaaaggtgggggtgacggcgatacgcagcgatcctcgcg                 >  1:5468411‑M1/1‑20 (MQ=255)                                                      aaTCCGCCATTAAGGagtagctcgtaaaggtgggggtgacggcgatacgcagcgatcctcgcgtcaga            <  1:1760276‑M1/68‑54 (MQ=255)                                                       aTCCGCCATTAAGGagtagctcgtaaaggtgggggtgacggcgatacgcagcgatcctcgcgtcagat           >  1:181041‑M1/1‑14 (MQ=255)                                                         ccGCCATTAAGGagtagctcgtaaaggtgggggtgacggcgatacgcagcgatcctcgcgtcagatcg         >  1:5028207‑M1/1‑12 (MQ=255)                                                         ccGCCATTAAGGagtagctcgtaaaggtgagggtgacggcgatacgcagcgatcctcgcgtcagatcg         >  1:4096283‑M1/1‑12 (MQ=255)                                                           gCCATTAAGGagtagatcgtaaaggtgggggtgacggcgatacgcagcgatcctcgcgtcagatcggc       <  1:5390984‑M1/68‑59 (MQ=255)                                                                tAAGGagtagctcgtaaaggtgggggtgacggcgatacgcagcgatcctcgcgtcagatcggcaacat  <  1:3340814‑M1/68‑64 (MQ=255)                                                                tAAGGagtagctcgtaaaggtgggggtgacggcgatacgcagcgatcctcgcgtcagatcggcaacat  <  1:4589006‑M1/68‑64 (MQ=255)                                                                    |                                                                CTCCTGCGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGGGCCGATAAAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCGCGTCAGAT  >  CP009273/354012‑354142

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑