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

TCCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCTGCGGCAGCAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGATCGAGGTCGAGGTTAATTATCGGA  >  CP009273/2399972‑2400103

acgagttgttccagacgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcaaa                                                                  <  1:953928‑M2/3‑1 (MQ=255)

acgagttgttccagacgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcaaa                                                                  <  1:668208‑M2/3‑1 (MQ=255)

   tgttgttccagacgctgcatttgctgacttacggcggactgagtacgactcacagcggcagcAAAAgt                                                               <  1:2902526‑M2/6‑1 (MQ=255)

   agttgttccagacgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAgt                                                               >  1:4008690‑M2/63‑68 (MQ=255)

   agttgttccagacgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAgt                                                               <  1:614688‑M2/6‑1 (MQ=255)

         tccagacgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAg                                                         >  1:1192000‑M2/57‑68 (MQ=255)

         tccagacgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAg                                                         >  1:2887150‑M2/57‑68 (MQ=255)

           cagacgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGAt                                                       <  1:1509298‑M2/14‑1 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    >  1:3026359‑M2/52‑68 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    >  1:4128030‑M2/52‑68 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    >  1:3969000‑M2/52‑68 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    <  1:3811610‑M2/17‑1 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    >  1:3766897‑M2/52‑68 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    <  1:3749433‑M2/17‑1 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    >  1:3667549‑M2/52‑68 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    <  1:2473011‑M2/17‑1 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    >  1:2178577‑M2/52‑68 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    >  1:1619412‑M2/52‑68 (MQ=255)

              acgctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCgg                                                    <  1:82855‑M2/17‑1 (MQ=255)

                gctgcatttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGgca                                                  >  1:4705701‑M2/50‑68 (MQ=255)

                   gcatttgcggtcttacggcggactgagtacgagacacagcggaagcAAAAGTGTTCAGATCGgcaaca                                               <  1:772529‑M2/22‑1 (MQ=255)

                     atttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGgcaacagc                                             <  1:3592261‑M2/24‑1 (MQ=255)

                      tttgctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGgcaacagca                                            <  1:751510‑M2/25‑1 (MQ=255)

                         gctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGgcaacagcaaca                                         <  1:1696453‑M2/28‑1 (MQ=255)

                         gctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGgcaacagcaaca                                         <  1:1755565‑M2/28‑1 (MQ=255)

                          ctgacttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGcaacaa                                        >  1:3115186‑M2/40‑68 (MQ=255)

                              cttatggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGt                                    <  1:4140672‑M2/33‑1 (MQ=255)

                              cttacggcggactgagtccgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGt                                    <  1:3630637‑M2/33‑1 (MQ=255)

                              cttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGt                                    <  1:571179‑M2/33‑1 (MQ=255)

                              cttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGt                                    <  1:3118353‑M2/33‑1 (MQ=255)

                              cttacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGt                                    <  1:3637030‑M2/33‑1 (MQ=255)

                                tacggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTtc                                  <  1:3786664‑M2/35‑1 (MQ=255)

                                   ggcggactgagtacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTca                               <  1:4144495‑M2/38‑1 (MQ=255)

                                        actgagtacgacacacagcggcagcAAAAGTGTTCAGATCTGCAACAGCAACAAATGTTCTCAGCAGa                          <  1:4281275‑M2/43‑1 (MQ=255)

                                        actgagtacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGa                          >  1:294840‑M2/26‑68 (MQ=255)

                                        actgagtacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGa                          >  1:2331839‑M2/26‑68 (MQ=255)

                                         ctgagtacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGAt                         <  1:4110034‑M2/44‑1 (MQ=255)

                                              tacgacacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGAtcgagg                    <  1:3119555‑M2/49‑1 (MQ=255)

                                                  acacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGAtcgaggtcga                >  1:1730278‑M2/16‑68 (MQ=255)

                                                  acacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGAtcgaggtcga                >  1:3149142‑M2/16‑68 (MQ=255)

                                                  acacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGAtcgaggtcga                >  1:2603297‑M2/16‑68 (MQ=255)

                                                  acacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGATCTCAGCAGAtcgaggtcga                >  1:3558644‑M2/16‑68 (MQ=255)

                                                   cacacagcggcagcAAAAGTGTTCAGATCGGCAGCAGCAACAAATGTTCTCAGCAGAtcgaggtcgag               <  1:1653172‑M2/54‑1 (MQ=255)

                                                   cacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGAtcgaggtcgag               <  1:3341465‑M2/54‑1 (MQ=255)

                                                   cacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGAtcgaggtcgag               <  1:3014624‑M2/54‑1 (MQ=255)

                                                   cacacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGAtcgaggtcgag               <  1:2130665‑M2/54‑1 (MQ=255)

                                                    acacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACATATGTTCTCAGCAGAtcgaggtcgagg              <  1:638771‑M2/55‑1 (MQ=255)

                                                    acacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGAtcgaggtcgagg              >  1:1032573‑M2/14‑68 (MQ=255)

                                                    acacagcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGAtcgaggtcgagg              >  1:2079777‑M2/14‑68 (MQ=255)

                                                         gcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGATCGAGGTCGAGGTTAAt         >  1:4212892‑M2/9‑68 (MQ=255)

                                                         gcggcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGATCGAGGTCGAGGTTAAt         >  1:4294746‑M2/9‑68 (MQ=255)

                                                            gcagcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGATCGAGGTCGAGGTTAATTAt      <  1:1101478‑M2/63‑1 (MQ=255)

                                                              agcAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGATCGAGGTCGAGGTTAATTATCg    >  1:1636811‑M2/4‑68 (MQ=255)

                                                                cAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGTAGATCGAGGTCGAGGTTAATTATCGGa  >  1:2268065‑M2/2‑68 (MQ=255)

TCCAGACGCTGCATTTGCTGACTTACGGCGGACTGAGTACGACACACAGCGGCAGCTGCGGCAGCAAAAGTGTTCAGATCGGCAACAGCAACAAATGTTCTCAGCAGATCGAGGTCGAGGTTAATTATCGGA  >  CP009273/2399972‑2400103

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: `‑`