Strain Fitness in Variovorax sp. SCN45 around GFF318

Experiment: M9 with calcium pantothenate 10 mg/mL and thiamine HCl 50 mg/mL

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 ntGFF316 and GFF317 are separated by 5 nucleotidesGFF317 and GFF318 are separated by 98 nucleotidesGFF318 and GFF319 are separated by 17 nucleotidesGFF319 and GFF320 overlap by 4 nucleotides GFF316 - Transmembrane protein, at 349,904 to 350,548 GFF316 GFF317 - Acyl carrier protein, at 350,554 to 350,865 GFF317 GFF318 - Uncharacterized protein YjgR, at 350,964 to 352,481 GFF318 GFF319 - EXTRACYTOPLASMIC FUNCTION ALTERNATIVE SIGMA FACTOR, at 352,499 to 353,140 GFF319 GFF320 - RNA polymerase ECF-type sigma factor, at 353,137 to 353,727 GFF320 Position (kb) 350 351 352 353Strain fitness (log2 ratio) -2 -1 0 1 2at 349.975 kb on + strand, within GFF316at 349.975 kb on + strand, within GFF316at 349.975 kb on + strand, within GFF316at 349.975 kb on + strand, within GFF316at 349.975 kb on + strand, within GFF316at 349.975 kb on + strand, within GFF316at 349.975 kb on + strand, within GFF316at 349.976 kb on - strand, within GFF316at 349.976 kb on - strand, within GFF316at 349.976 kb on - strand, within GFF316at 350.097 kb on + strand, within GFF316at 350.097 kb on + strand, within GFF316at 350.097 kb on + strand, within GFF316at 350.097 kb on + strand, within GFF316at 350.097 kb on + strand, within GFF316at 350.097 kb on + strand, within GFF316at 350.097 kb on + strand, within GFF316at 350.097 kb on + strand, within GFF316at 350.098 kb on - strand, within GFF316at 350.098 kb on - strand, within GFF316at 350.098 kb on - strand, within GFF316at 350.098 kb on - strand, within GFF316at 350.098 kb on - strand, within GFF316at 350.098 kb on - strand, within GFF316at 350.098 kb on - strand, within GFF316at 350.133 kb on + strand, within GFF316at 350.133 kb on + strand, within GFF316at 350.134 kb on - strand, within GFF316at 350.134 kb on - strand, within GFF316at 350.134 kb on - strand, within GFF316at 350.134 kb on - strand, within GFF316at 350.134 kb on - strand, within GFF316at 350.166 kb on + strand, within GFF316at 350.167 kb on - strand, within GFF316at 350.167 kb on - strand, within GFF316at 350.167 kb on - strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.298 kb on + strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.299 kb on - strand, within GFF316at 350.502 kb on + strandat 350.502 kb on + strandat 350.503 kb on - strandat 350.503 kb on - strandat 350.503 kb on - strandat 350.503 kb on - strandat 350.503 kb on - strandat 350.503 kb on - strandat 350.503 kb on - strandat 350.503 kb on - strandat 350.559 kb on + strandat 350.560 kb on - strandat 350.560 kb on - strandat 350.720 kb on + strand, within GFF317at 350.721 kb on - strand, within GFF317at 350.721 kb on - strand, within GFF317at 350.851 kb on + strandat 350.851 kb on + strandat 350.851 kb on + strandat 350.852 kb on - strandat 350.852 kb on - strandat 350.880 kb on + strandat 350.880 kb on + strandat 350.880 kb on + strandat 350.880 kb on + strandat 350.881 kb on - strandat 350.881 kb on - strandat 350.881 kb on - strandat 350.894 kb on - strandat 350.914 kb on + strandat 350.914 kb on + strandat 350.915 kb on - strandat 350.915 kb on - strandat 350.915 kb on - strandat 350.931 kb on + strandat 350.931 kb on + strandat 350.932 kb on - strandat 350.946 kb on + strandat 350.946 kb on + strandat 350.946 kb on + strandat 350.946 kb on + strandat 350.946 kb on + strandat 350.946 kb on + strandat 350.947 kb on - strandat 350.947 kb on - strandat 350.947 kb on - strandat 350.963 kb on + strandat 350.963 kb on + strandat 350.963 kb on + strandat 350.963 kb on + strandat 350.963 kb on + strandat 350.964 kb on - strandat 350.964 kb on - strandat 351.403 kb on + strand, within GFF318at 351.403 kb on + strand, within GFF318at 351.403 kb on + strand, within GFF318at 351.403 kb on + strand, within GFF318at 351.404 kb on - strand, within GFF318at 351.404 kb on - strand, within GFF318at 351.404 kb on - strand, within GFF318at 351.441 kb on + strand, within GFF318at 351.441 kb on + strand, within GFF318at 351.441 kb on + strand, within GFF318at 351.441 kb on + strand, within GFF318at 351.441 kb on + strand, within GFF318at 351.441 kb on + strand, within GFF318at 351.441 kb on + strand, within GFF318at 351.442 kb on - strand, within GFF318at 351.442 kb on - strand, within GFF318at 351.442 kb on - strand, within GFF318at 351.442 kb on - strand, within GFF318at 351.442 kb on - strand, within GFF318at 351.442 kb on - strand, within GFF318at 351.442 kb on - strand, within GFF318at 351.663 kb on + strand, within GFF318at 351.664 kb on - strand, within GFF318at 351.664 kb on - strand, within GFF318at 351.664 kb on - strand, within GFF318at 351.664 kb on - strand, within GFF318at 351.664 kb on - strand, within GFF318at 351.664 kb on - strand, within GFF318at 351.852 kb on + strand, within GFF318at 351.852 kb on + strand, within GFF318at 351.852 kb on + strand, within GFF318at 351.852 kb on + strand, within GFF318at 351.853 kb on - strand, within GFF318at 352.212 kb on + strand, within GFF318at 352.213 kb on - strand, within GFF318at 352.213 kb on - strand, within GFF318at 352.213 kb on - strand, within GFF318at 352.340 kb on + strandat 352.500 kb on + strandat 352.500 kb on + strandat 352.500 kb on + strandat 352.501 kb on - strandat 352.566 kb on + strand, within GFF319at 352.566 kb on + strand, within GFF319at 352.567 kb on - strand, within GFF319at 352.567 kb on - strand, within GFF319at 352.567 kb on - strand, within GFF319at 352.567 kb on - strand, within GFF319at 352.567 kb on - strand, within GFF319at 352.614 kb on + strand, within GFF319at 352.614 kb on + strand, within GFF319at 352.614 kb on + strand, within GFF319at 352.614 kb on + strand, within GFF319at 352.614 kb on + strand, within GFF319at 352.614 kb on + strand, within GFF319at 352.614 kb on + strand, within GFF319at 352.614 kb on + strand, within GFF319at 352.615 kb on - strand, within GFF319at 352.615 kb on - strand, within GFF319at 353.007 kb on + strand, within GFF319at 353.008 kb on - strand, within GFF319at 353.008 kb on - strand, within GFF319at 353.008 kb on - strand, within GFF319at 353.283 kb on + strand, within GFF320at 353.283 kb on + strand, within GFF320at 353.283 kb on + strand, within GFF320at 353.284 kb on - strand, within GFF320at 353.284 kb on - strand, within GFF320at 353.447 kb on + strand, within GFF320at 353.447 kb on + strand, within GFF320at 353.447 kb on + strand, within GFF320at 353.448 kb on - strand, within GFF320at 353.448 kb on - strand, within GFF320

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL and thiamine HCl 50 mg/mL
remove
349,975 + GFF316 0.11 +1.3
349,975 + GFF316 0.11 +0.5
349,975 + GFF316 0.11 -0.1
349,975 + GFF316 0.11 -0.0
349,975 + GFF316 0.11 -2.1
349,975 + GFF316 0.11 -0.3
349,975 + GFF316 0.11 +0.4
349,976 - GFF316 0.11 -1.5
349,976 - GFF316 0.11 -2.1
349,976 - GFF316 0.11 +0.2
350,097 + GFF316 0.30 +0.1
350,097 + GFF316 0.30 +0.3
350,097 + GFF316 0.30 +0.3
350,097 + GFF316 0.30 +0.5
350,097 + GFF316 0.30 +0.3
350,097 + GFF316 0.30 -0.1
350,097 + GFF316 0.30 -0.1
350,097 + GFF316 0.30 +0.4
350,098 - GFF316 0.30 +0.4
350,098 - GFF316 0.30 +0.7
350,098 - GFF316 0.30 -0.7
350,098 - GFF316 0.30 +0.5
350,098 - GFF316 0.30 +0.7
350,098 - GFF316 0.30 +0.5
350,098 - GFF316 0.30 +0.3
350,133 + GFF316 0.36 -0.3
350,133 + GFF316 0.36 +1.8
350,134 - GFF316 0.36 -0.5
350,134 - GFF316 0.36 +1.6
350,134 - GFF316 0.36 +0.4
350,134 - GFF316 0.36 +1.3
350,134 - GFF316 0.36 -0.0
350,166 + GFF316 0.41 -0.1
350,167 - GFF316 0.41 +0.9
350,167 - GFF316 0.41 +2.6
350,167 - GFF316 0.41 -0.0
350,298 + GFF316 0.61 -0.5
350,298 + GFF316 0.61 -0.9
350,298 + GFF316 0.61 +1.5
350,298 + GFF316 0.61 -1.1
350,298 + GFF316 0.61 -0.7
350,298 + GFF316 0.61 -0.3
350,298 + GFF316 0.61 +0.9
350,298 + GFF316 0.61 -0.4
350,298 + GFF316 0.61 -0.4
350,298 + GFF316 0.61 -0.1
350,298 + GFF316 0.61 -0.1
350,298 + GFF316 0.61 +0.4
350,299 - GFF316 0.61 -1.3
350,299 - GFF316 0.61 -0.5
350,299 - GFF316 0.61 -1.3
350,299 - GFF316 0.61 -1.3
350,299 - GFF316 0.61 +0.3
350,299 - GFF316 0.61 -0.4
350,299 - GFF316 0.61 -0.1
350,299 - GFF316 0.61 +0.6
350,299 - GFF316 0.61 +0.4
350,299 - GFF316 0.61 +0.7
350,299 - GFF316 0.61 +0.4
350,299 - GFF316 0.61 -1.0
350,299 - GFF316 0.61 +0.5
350,502 + -1.9
350,502 + -0.1
350,503 - +0.8
350,503 - -1.1
350,503 - -0.7
350,503 - +0.3
350,503 - -0.1
350,503 - -0.2
350,503 - -0.4
350,503 - -0.4
350,559 + -0.2
350,560 - +0.3
350,560 - +0.0
350,720 + GFF317 0.53 +0.0
350,721 - GFF317 0.54 +0.0
350,721 - GFF317 0.54 -1.9
350,851 + -1.1
350,851 + -1.0
350,851 + -0.1
350,852 - +0.8
350,852 - -0.9
350,880 + -0.1
350,880 + -0.2
350,880 + -0.7
350,880 + -1.2
350,881 - -0.0
350,881 - -2.1
350,881 - -0.4
350,894 - +0.1
350,914 + -0.0
350,914 + -0.1
350,915 - -1.5
350,915 - -0.3
350,915 - +0.0
350,931 + +1.0
350,931 + +1.3
350,932 - -0.8
350,946 + -0.4
350,946 + -0.5
350,946 + +0.5
350,946 + -0.4
350,946 + -1.5
350,946 + -0.5
350,947 - -0.4
350,947 - +0.3
350,947 - -0.4
350,963 + +0.7
350,963 + -0.3
350,963 + -1.0
350,963 + +0.4
350,963 + -0.1
350,964 - +0.1
350,964 - +1.0
351,403 + GFF318 0.29 -0.1
351,403 + GFF318 0.29 +1.3
351,403 + GFF318 0.29 -1.0
351,403 + GFF318 0.29 -1.1
351,404 - GFF318 0.29 +0.1
351,404 - GFF318 0.29 +0.3
351,404 - GFF318 0.29 -0.8
351,441 + GFF318 0.31 -0.7
351,441 + GFF318 0.31 -0.4
351,441 + GFF318 0.31 -1.0
351,441 + GFF318 0.31 +0.0
351,441 + GFF318 0.31 -0.6
351,441 + GFF318 0.31 +0.1
351,441 + GFF318 0.31 +0.1
351,442 - GFF318 0.31 -0.3
351,442 - GFF318 0.31 -0.4
351,442 - GFF318 0.31 -1.5
351,442 - GFF318 0.31 +0.3
351,442 - GFF318 0.31 -0.6
351,442 - GFF318 0.31 +0.4
351,442 - GFF318 0.31 -0.1
351,663 + GFF318 0.46 -0.3
351,664 - GFF318 0.46 -1.3
351,664 - GFF318 0.46 -1.6
351,664 - GFF318 0.46 -1.9
351,664 - GFF318 0.46 +0.3
351,664 - GFF318 0.46 -0.6
351,664 - GFF318 0.46 -0.7
351,852 + GFF318 0.58 -0.2
351,852 + GFF318 0.58 +0.1
351,852 + GFF318 0.58 +0.1
351,852 + GFF318 0.58 +0.7
351,853 - GFF318 0.59 -0.7
352,212 + GFF318 0.82 +0.4
352,213 - GFF318 0.82 -0.1
352,213 - GFF318 0.82 -0.5
352,213 - GFF318 0.82 -0.1
352,340 + -0.0
352,500 + -1.3
352,500 + -0.1
352,500 + +0.2
352,501 - -0.9
352,566 + GFF319 0.10 -0.3
352,566 + GFF319 0.10 -0.5
352,567 - GFF319 0.11 +0.3
352,567 - GFF319 0.11 -0.2
352,567 - GFF319 0.11 +0.3
352,567 - GFF319 0.11 -0.2
352,567 - GFF319 0.11 +0.3
352,614 + GFF319 0.18 -1.1
352,614 + GFF319 0.18 +0.3
352,614 + GFF319 0.18 -0.7
352,614 + GFF319 0.18 -2.1
352,614 + GFF319 0.18 +0.3
352,614 + GFF319 0.18 +0.5
352,614 + GFF319 0.18 -0.7
352,614 + GFF319 0.18 +0.1
352,615 - GFF319 0.18 -0.3
352,615 - GFF319 0.18 -1.6
353,007 + GFF319 0.79 +0.1
353,008 - GFF319 0.79 +0.7
353,008 - GFF319 0.79 +0.9
353,008 - GFF319 0.79 +0.8
353,283 + GFF320 0.25 -1.5
353,283 + GFF320 0.25 -0.7
353,283 + GFF320 0.25 -0.8
353,284 - GFF320 0.25 -0.1
353,284 - GFF320 0.25 -0.2
353,447 + GFF320 0.52 -1.1
353,447 + GFF320 0.52 -0.3
353,447 + GFF320 0.52 +0.3
353,448 - GFF320 0.53 +1.3
353,448 - GFF320 0.53 -0.6

Or see this region's nucleotide sequence