Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS02220

Experiment: 2-Deoxycitidine 5' monophosphate 1 mM phosphorus source

Add experiment(s):

Zoom: Pan:

Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

download SVG
500 ntHMPREF1058_RS02230 and HMPREF1058_RS02225 are separated by 8 nucleotidesHMPREF1058_RS02225 and HMPREF1058_RS02220 are separated by 180 nucleotidesHMPREF1058_RS02220 and HMPREF1058_RS0120025 are separated by 17 nucleotidesHMPREF1058_RS0120025 and HMPREF1058_RS02215 are separated by 122 nucleotides HMPREF1058_RS02230: HMPREF1058_RS02230 - exodeoxyribonuclease VII large subunit, at 252,673 to 253,980 _RS02230 HMPREF1058_RS02225: HMPREF1058_RS02225 - exodeoxyribonuclease VII small subunit, at 253,989 to 254,192 _RS02225 HMPREF1058_RS02220: HMPREF1058_RS02220 - branched-chain amino acid aminotransferase, at 254,373 to 255,392 _RS02220 HMPREF1058_RS0120025: HMPREF1058_RS0120025 - DUF975 family protein, at 255,410 to 256,035 _RS0120025 HMPREF1058_RS02215: HMPREF1058_RS02215 - tRNA (guanosine(46)-N7)-methyltransferase TrmB, at 256,158 to 256,916 _RS02215 Position (kb) 254 255 256Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 253.373 kb on - strand, within HMPREF1058_RS02230at 253.373 kb on - strand, within HMPREF1058_RS02230at 253.407 kb on - strand, within HMPREF1058_RS02230at 253.410 kb on + strand, within HMPREF1058_RS02230at 253.410 kb on + strand, within HMPREF1058_RS02230at 253.410 kb on + strand, within HMPREF1058_RS02230at 253.414 kb on - strand, within HMPREF1058_RS02230at 253.425 kb on + strand, within HMPREF1058_RS02230at 253.486 kb on - strand, within HMPREF1058_RS02230at 253.507 kb on - strand, within HMPREF1058_RS02230at 253.508 kb on + strand, within HMPREF1058_RS02230at 253.569 kb on + strand, within HMPREF1058_RS02230at 253.570 kb on - strand, within HMPREF1058_RS02230at 253.570 kb on - strand, within HMPREF1058_RS02230at 253.616 kb on + strandat 253.617 kb on - strand, within HMPREF1058_RS02230at 253.617 kb on - strand, within HMPREF1058_RS02230at 253.617 kb on - strand, within HMPREF1058_RS02230at 253.697 kb on + strand, within HMPREF1058_RS02230at 253.697 kb on + strand, within HMPREF1058_RS02230at 253.863 kb on + strandat 253.864 kb on - strandat 253.864 kb on - strandat 253.867 kb on - strandat 253.963 kb on - strandat 253.964 kb on + strandat 253.965 kb on - strandat 253.965 kb on - strandat 254.010 kb on + strand, within HMPREF1058_RS02225at 254.054 kb on - strand, within HMPREF1058_RS02225at 254.054 kb on - strand, within HMPREF1058_RS02225at 254.060 kb on + strand, within HMPREF1058_RS02225at 254.225 kb on - strandat 254.263 kb on - strandat 254.319 kb on + strandat 254.367 kb on - strandat 254.372 kb on + strandat 254.372 kb on + strandat 254.410 kb on - strandat 254.424 kb on + strandat 254.425 kb on - strandat 254.425 kb on - strandat 254.426 kb on + strandat 254.431 kb on + strandat 254.431 kb on + strandat 254.431 kb on + strandat 254.431 kb on + strandat 254.573 kb on + strand, within HMPREF1058_RS02220at 254.622 kb on - strand, within HMPREF1058_RS02220at 254.740 kb on - strandat 254.763 kb on - strand, within HMPREF1058_RS02220at 254.800 kb on - strand, within HMPREF1058_RS02220at 254.870 kb on + strand, within HMPREF1058_RS02220at 254.935 kb on - strand, within HMPREF1058_RS02220at 254.935 kb on - strand, within HMPREF1058_RS02220at 254.994 kb on + strand, within HMPREF1058_RS02220at 255.041 kb on + strand, within HMPREF1058_RS02220at 255.069 kb on + strand, within HMPREF1058_RS02220at 255.105 kb on - strand, within HMPREF1058_RS02220at 255.105 kb on - strand, within HMPREF1058_RS02220at 255.278 kb on + strand, within HMPREF1058_RS02220at 255.285 kb on - strand, within HMPREF1058_RS02220at 255.339 kb on - strandat 255.345 kb on + strandat 255.362 kb on + strandat 255.362 kb on + strandat 255.369 kb on - strandat 255.386 kb on - strandat 255.393 kb on + strandat 255.402 kb on - strandat 255.484 kb on + strand, within HMPREF1058_RS0120025at 255.635 kb on + strand, within HMPREF1058_RS0120025at 255.669 kb on + strand, within HMPREF1058_RS0120025at 255.693 kb on + strand, within HMPREF1058_RS0120025at 255.715 kb on + strand, within HMPREF1058_RS0120025at 255.716 kb on - strand, within HMPREF1058_RS0120025at 255.716 kb on - strand, within HMPREF1058_RS0120025at 255.717 kb on + strand, within HMPREF1058_RS0120025at 255.717 kb on + strand, within HMPREF1058_RS0120025at 255.766 kb on + strand, within HMPREF1058_RS0120025at 255.830 kb on + strand, within HMPREF1058_RS0120025at 255.956 kb on - strand, within HMPREF1058_RS0120025at 255.956 kb on - strand, within HMPREF1058_RS0120025at 255.960 kb on - strand, within HMPREF1058_RS0120025at 255.960 kb on - strand, within HMPREF1058_RS0120025at 255.960 kb on - strand, within HMPREF1058_RS0120025at 255.960 kb on - strand, within HMPREF1058_RS0120025at 255.983 kb on - strandat 256.034 kb on - strandat 256.036 kb on + strandat 256.037 kb on - strandat 256.039 kb on - strandat 256.039 kb on - strandat 256.145 kb on + strandat 256.191 kb on - strandat 256.218 kb on + strandat 256.244 kb on + strand, within HMPREF1058_RS02215at 256.244 kb on + strand, within HMPREF1058_RS02215at 256.335 kb on - strand, within HMPREF1058_RS02215at 256.352 kb on + strand, within HMPREF1058_RS02215at 256.352 kb on + strand, within HMPREF1058_RS02215at 256.352 kb on + strand, within HMPREF1058_RS02215at 256.382 kb on - strand, within HMPREF1058_RS02215at 256.385 kb on + strand, within HMPREF1058_RS02215

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction 2-Deoxycitidine 5' monophosphate 1 mM phosphorus source
remove
253,373 - HMPREF1058_RS02230 0.54 +0.3
253,373 - HMPREF1058_RS02230 0.54 -0.0
253,407 - HMPREF1058_RS02230 0.56 +0.4
253,410 + HMPREF1058_RS02230 0.56 +1.0
253,410 + HMPREF1058_RS02230 0.56 +0.1
253,410 + HMPREF1058_RS02230 0.56 +0.0
253,414 - HMPREF1058_RS02230 0.57 +0.7
253,425 + HMPREF1058_RS02230 0.57 +0.0
253,486 - HMPREF1058_RS02230 0.62 -1.7
253,507 - HMPREF1058_RS02230 0.64 +0.0
253,508 + HMPREF1058_RS02230 0.64 +2.6
253,569 + HMPREF1058_RS02230 0.69 -1.5
253,570 - HMPREF1058_RS02230 0.69 -0.2
253,570 - HMPREF1058_RS02230 0.69 +1.5
253,616 + -0.6
253,617 - HMPREF1058_RS02230 0.72 +0.2
253,617 - HMPREF1058_RS02230 0.72 -1.4
253,617 - HMPREF1058_RS02230 0.72 +1.2
253,697 + HMPREF1058_RS02230 0.78 -2.8
253,697 + HMPREF1058_RS02230 0.78 +1.6
253,863 + -0.3
253,864 - +0.8
253,864 - +1.3
253,867 - -1.2
253,963 - +0.4
253,964 + +0.0
253,965 - -0.4
253,965 - -0.6
254,010 + HMPREF1058_RS02225 0.10 -1.2
254,054 - HMPREF1058_RS02225 0.32 -0.1
254,054 - HMPREF1058_RS02225 0.32 -0.7
254,060 + HMPREF1058_RS02225 0.35 +0.3
254,225 - -0.6
254,263 - +0.1
254,319 + -1.4
254,367 - -1.0
254,372 + -4.5
254,372 + -3.9
254,410 - -2.6
254,424 + -4.1
254,425 - -3.3
254,425 - -2.1
254,426 + -2.5
254,431 + -3.1
254,431 + -4.2
254,431 + -2.0
254,431 + -3.2
254,573 + HMPREF1058_RS02220 0.20 -1.9
254,622 - HMPREF1058_RS02220 0.24 +0.3
254,740 - -1.0
254,763 - HMPREF1058_RS02220 0.38 -2.0
254,800 - HMPREF1058_RS02220 0.42 -1.9
254,870 + HMPREF1058_RS02220 0.49 -1.9
254,935 - HMPREF1058_RS02220 0.55 -3.8
254,935 - HMPREF1058_RS02220 0.55 -0.6
254,994 + HMPREF1058_RS02220 0.61 -2.8
255,041 + HMPREF1058_RS02220 0.65 -1.4
255,069 + HMPREF1058_RS02220 0.68 -3.5
255,105 - HMPREF1058_RS02220 0.72 -1.7
255,105 - HMPREF1058_RS02220 0.72 -1.9
255,278 + HMPREF1058_RS02220 0.89 -2.7
255,285 - HMPREF1058_RS02220 0.89 -2.4
255,339 - -3.1
255,345 + -1.4
255,362 + -1.6
255,362 + -1.8
255,369 - -1.3
255,386 - -1.6
255,393 + -0.8
255,402 - -0.2
255,484 + HMPREF1058_RS0120025 0.12 +0.1
255,635 + HMPREF1058_RS0120025 0.36 +0.7
255,669 + HMPREF1058_RS0120025 0.41 -0.3
255,693 + HMPREF1058_RS0120025 0.45 +0.3
255,715 + HMPREF1058_RS0120025 0.49 +1.0
255,716 - HMPREF1058_RS0120025 0.49 +0.6
255,716 - HMPREF1058_RS0120025 0.49 +1.1
255,717 + HMPREF1058_RS0120025 0.49 -0.3
255,717 + HMPREF1058_RS0120025 0.49 -1.1
255,766 + HMPREF1058_RS0120025 0.57 +0.2
255,830 + HMPREF1058_RS0120025 0.67 +0.6
255,956 - HMPREF1058_RS0120025 0.87 +0.7
255,956 - HMPREF1058_RS0120025 0.87 +0.2
255,960 - HMPREF1058_RS0120025 0.88 +0.5
255,960 - HMPREF1058_RS0120025 0.88 -1.7
255,960 - HMPREF1058_RS0120025 0.88 +2.0
255,960 - HMPREF1058_RS0120025 0.88 +1.7
255,983 - -3.6
256,034 - -2.1
256,036 + -0.7
256,037 - +1.1
256,039 - +1.1
256,039 - +1.1
256,145 + +0.2
256,191 - +0.6
256,218 + -3.2
256,244 + HMPREF1058_RS02215 0.11 +0.8
256,244 + HMPREF1058_RS02215 0.11 +1.3
256,335 - HMPREF1058_RS02215 0.23 +0.8
256,352 + HMPREF1058_RS02215 0.26 -0.5
256,352 + HMPREF1058_RS02215 0.26 -0.7
256,352 + HMPREF1058_RS02215 0.26 +0.7
256,382 - HMPREF1058_RS02215 0.30 -0.7
256,385 + HMPREF1058_RS02215 0.30 +0.2

Or see this region's nucleotide sequence