BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	1,997,112	Δ26,567 bp		[tcyN]–[fliR]	32 genes [tcyN], tcyL, dcyD, tcyJ, fliZ, fliA, fliC, fliD, fliS, fliT, amyA, yedD, yedE, yedF, yedK, yedL, yedN, intG, fliE, fliF, fliG, fliH, fliI, fliJ, fliK, fliL, fliM, fliN, fliO, fliP, fliQ, [fliR]

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	1997112	2023678	26567	29 [0]	[0] 30	[tcyN]–[fliR]	[tcyN],tcyL,dcyD,tcyJ,fliZ,fliA,fliC,fliD,fliS,fliT,amyA,yedD,yedE,yedF,yedK,yedL,yedN,intG,fliE,fliF,fliG,fliH,fliI,fliJ,fliK,fliL,fliM,fliN,fliO,fliP,fliQ,[fliR]

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1997111	0 (0.000)	29 (1.060)	24/98	0.0	100%	coding (704/753 nt)	tcyN	cystine ABC transporter ATP binding subunit
*	?	NC_000913	2023679 =	0 (0.000)	29 (1.060)	24/98	0.0	100%	intergenic (+1/‑289)	fliR/rcsA	flagellar biosynthesis protein FliR/DNA‑binding transcriptional activator RcsA

TATTGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1997063‑1997111

‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAATAAT  >  NC_000913/2023679‑2023725

TATTGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGT                                                >  1:1383452/1‑50

  TTGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGTT                                               <  1:305914/49‑1

  TTGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGTT                                               <  1:438685/49‑1

    GCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGTTCC                                             <  1:292185/49‑1

        CAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAAC                                        <  1:1447578/50‑1

         AGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACG                                       <  1:228914/50‑1

          GAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACGT                                      <  1:1664967/50‑1

           AAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACGTT                                     <  1:817466/50‑1

            AACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACGTTT                                    <  1:117359/50‑1

              CTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACGGTTAT                                  >  1:1796523/1‑50

                    GAGGAACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATGTT                            <  1:421592/50‑1

                    GAGGAACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATG                              <  1:344458/48‑1

                     AGGAACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATGTTA                           <  1:311036/50‑1

                        AACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATGTTATCC                        >  1:1853063/1‑50

                        AACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATGTTATCC                        <  1:606922/50‑1

                        AACTGGCGGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATGTTATCC                        <  1:1442236/50‑1

                             GCGGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATGTTATCCTAAG                    <  1:1192870/49‑1

                              CGGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATGTTATCCTAAGGA                  <  1:1944757/50‑1

                              CGGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATGTTATCCTAAGGA                  >  1:1750297/1‑50

                               GGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATGTTATCCTAAGGAT                 <  1:1741643/50‑1

                               GGGTGCGAGGCTGCTCGGTTCCGTAACGTTTATCATGTTATCCTAAGGAT                 <  1:712023/50‑1

                                    CGAGGCTGCTCGGTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCC            <  1:938841/50‑1

                                      AGGCTGCTCGGTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGA          <  1:1672734/50‑1

                                        GCTGCTCGGTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAA        <  1:1741934/50‑1

                                            CTCGGTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAAT     >  1:588330/1‑49

                                            CTCGGTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAAT     <  1:1627990/49‑1

                                            CTCGGTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAAT     <  1:1394199/49‑1

                                               GGTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAATAAT  <  1:2149218/49‑1

                                               GGTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAATAAT  <  1:949599/49‑1

TATTGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1997063‑1997111

‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAATAAT  >  NC_000913/2023679‑2023725

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `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.