BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	CP009273	2,400,028	Δ9 bp	coding (85‑93/939 nt)	lrhA ←	transcriptional repressor of flagellar, motility and chemotaxis genes

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	CP009273	2400028	2400036	9	54 [0]	[0] 54	lrhA	transcriptional repressor of flagellar, motility and chemotaxis genes

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 2400027	0 (0.000)	49 (1.010)	24/118	0.4	100%	coding (94/939 nt)	lrhA	transcriptional repressor of flagellar, motility and chemotaxis genes
*	?	CP009273	2400037 =	0 (0.000)	49 (1.010)	24/118	0.4	100%	coding (84/939 nt)	lrhA	transcriptional repressor of flagellar, motility and chemotaxis genes

ACGAGTTGTTCCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCTGCGGCAGCAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGATCGAGGTCGAGGTTA  >  CP009273/2399963‑2400094

aCGAGTTGTTCCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaa                                                                  <  1:953928‑M1/68‑4 (MQ=255)

aCGAGTTGTTCCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaa                                                                  <  1:668208‑M1/68‑4 (MQ=255)

   tgttgttcCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACTCACAGCGGCAGCaaaagt                                                               <  1:2902526‑M1/67‑7 (MQ=255)

   aGTTGTTCCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagt                                                               >  1:4008690‑M1/1‑62 (MQ=255)

   aGTTGTTCCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagt                                                               <  1:614688‑M1/68‑7 (MQ=255)

         tCCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcag                                                         >  1:1192000‑M1/1‑56 (MQ=255)

         tCCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcag                                                         >  1:2887150‑M1/1‑56 (MQ=255)

           cAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagat                                                       <  1:1509298‑M1/68‑15 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    >  1:3026359‑M1/1‑51 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    >  1:4128030‑M1/1‑51 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    >  1:3969000‑M1/1‑51 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    <  1:3811610‑M1/68‑18 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    >  1:3766897‑M1/1‑51 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    <  1:3749433‑M1/68‑18 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    >  1:3667549‑M1/1‑51 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    <  1:2473011‑M1/68‑18 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    >  1:2178577‑M1/1‑51 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    >  1:1619412‑M1/1‑51 (MQ=255)

              aCGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcgg                                                    <  1:82855‑M1/68‑18 (MQ=255)

                gCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggca                                                  >  1:4705701‑M1/1‑49 (MQ=255)

                   gCATTTGCGGTCTTACGGCGGACTGAGTACGAGACACAGCGGAAGCaaaagtgttcagatcggcaaca                                               <  1:772529‑M1/68‑23 (MQ=255)

                     aTTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagc                                             <  1:3592261‑M1/68‑25 (MQ=255)

                      tttGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagca                                            <  1:751510‑M1/68‑26 (MQ=255)

                         gCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaaca                                         <  1:1696453‑M1/68‑29 (MQ=255)

                         gCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaaca                                         <  1:1755565‑M1/68‑29 (MQ=255)

                          cTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaa                                        >  1:3115186‑M1/1‑39 (MQ=255)

                              cTTATGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgt                                    <  1:4140672‑M1/68‑34 (MQ=255)

                              cTTACGGCGGACTGAGTCCGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgt                                    <  1:3630637‑M1/68‑34 (MQ=255)

                              cTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgt                                    <  1:571179‑M1/68‑34 (MQ=255)

                              cTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgt                                    <  1:3118353‑M1/68‑34 (MQ=255)

                              cTTACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgt                                    <  1:3637030‑M1/68‑34 (MQ=255)

                                tACGGCGGACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttc                                  <  1:3786664‑M1/68‑36 (MQ=255)

                                   ggcggACTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctca                               <  1:4144495‑M1/68‑39 (MQ=255)

                                        aCTGAGTACGACACACAGCGGCAGCaaaagtgttcagatctgcaacagcaacaaatgttctcagcaga                          <  1:4281275‑M1/68‑44 (MQ=255)

                                        aCTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcaga                          >  1:294840‑M1/1‑25 (MQ=255)

                                        aCTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcaga                          >  1:2331839‑M1/1‑25 (MQ=255)

                                         cTGAGTACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagat                         <  1:4110034‑M1/68‑45 (MQ=255)

                                              tACGACACACAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgagg                    <  1:3119555‑M1/68‑50 (MQ=255)

                                                  acacacAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcga                >  1:1730278‑M1/1‑15 (MQ=255)

                                                  acacacAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcga                >  1:3149142‑M1/1‑15 (MQ=255)

                                                  acacacAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcga                >  1:2603297‑M1/1‑15 (MQ=255)

                                                  acacacAGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgatctcagcagatcgaggtcga                >  1:3558644‑M1/1‑15 (MQ=255)

                                                   cacacaGCGGCAGCaaaagtgttcagatcggcagcagcaacaaatgttctcagcagatcgaggtcgag               <  1:1653172‑M1/68‑55 (MQ=255)

                                                   cacacaGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcgag               <  1:3341465‑M1/68‑55 (MQ=255)

                                                   cacacaGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcgag               <  1:3014624‑M1/68‑55 (MQ=255)

                                                   cacacaGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcgag               <  1:2130665‑M1/68‑55 (MQ=255)

                                                    acacaGCGGCAGCaaaagtgttcagatcggcaacagcaacatatgttctcagcagatcgaggtcgagg              <  1:638771‑M1/68‑56 (MQ=255)

                                                    acacaGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcgagg              >  1:1032573‑M1/1‑13 (MQ=255)

                                                    acacaGCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcgagg              >  1:2079777‑M1/1‑13 (MQ=255)

                                                         gCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcgaggttaat         >  1:4212892‑M1/1‑8 (MQ=255)

                                                         gCGGCAGCaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcgaggttaat         >  1:4294746‑M1/1‑8 (MQ=255)

                                                            gcagcaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcgaggttaattat      <  1:1101478‑M1/68‑64 (MQ=255)

                                                              agcaaaagtgttcagatcggcaacagcaacaaatgttctcagcagatcgaggtcgaggttaattatcg    >  1:1636811‑M1/1‑3 (MQ=255)

                                                                caaaagtgttcagatcggcaacagcaacaaatgttctcagtagatcgaggtcgaggttaattatcgga  >  1:2268065‑M1/1‑1 (MQ=255)

ACGAGTTGTTCCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCTGCGGCAGCAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGATCGAGGTCGAGGTTA  >  CP009273/2399963‑2400094

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`