Strain Fitness in Shewanella oneidensis MR-1 around SO0306

Experiment: SBM - no RNA protect

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 ntSO0304 and SO0305 are separated by 393 nucleotidesSO0305 and SO0306 are separated by 316 nucleotidesSO0306 and SO0308 are separated by 300 nucleotides SO0304: SO0304 - hypothetical endonuclease (NCBI ptt file), at 309,390 to 310,352 SO0304 SO0305: SO0305 - hypothetical protein (NCBI ptt file), at 310,746 to 310,859 SO0305 SO0306: SO0306 - hypothetical protein (NCBI ptt file), at 311,176 to 312,687 SO0306 SO0308: SO0308 - conserved hypothetical protein (NCBI ptt file), at 312,988 to 314,208 SO0308 Position (kb) 311 312 313Strain fitness (log2 ratio) -2 -1 0 1 2at 310.281 kb on - strandat 310.367 kb on - strandat 310.388 kb on - strandat 310.506 kb on + strandat 310.527 kb on + strandat 310.544 kb on + strandat 310.552 kb on - strandat 310.552 kb on - strandat 310.552 kb on - strandat 310.552 kb on - strandat 310.552 kb on - strandat 310.564 kb on + strandat 310.597 kb on - strandat 310.617 kb on + strandat 310.649 kb on + strandat 310.657 kb on - strandat 310.707 kb on + strandat 310.707 kb on + strandat 310.707 kb on + strandat 310.707 kb on + strandat 310.707 kb on + strandat 310.707 kb on + strandat 310.715 kb on - strandat 310.770 kb on - strand, within SO0305at 310.820 kb on - strand, within SO0305at 310.917 kb on + strandat 310.930 kb on + strandat 310.962 kb on + strandat 311.086 kb on - strandat 311.153 kb on - strandat 311.234 kb on + strandat 311.242 kb on - strandat 311.242 kb on - strandat 311.268 kb on + strandat 311.269 kb on + strandat 311.296 kb on - strandat 311.502 kb on - strand, within SO0306at 311.520 kb on + strand, within SO0306at 311.574 kb on - strand, within SO0306at 311.648 kb on + strand, within SO0306at 311.741 kb on + strand, within SO0306at 311.807 kb on + strand, within SO0306at 311.807 kb on + strand, within SO0306at 311.807 kb on + strand, within SO0306at 311.838 kb on - strand, within SO0306at 311.843 kb on + strand, within SO0306at 311.843 kb on - strand, within SO0306at 311.886 kb on + strand, within SO0306at 311.893 kb on - strand, within SO0306at 311.904 kb on - strand, within SO0306at 311.975 kb on + strand, within SO0306at 311.989 kb on + strand, within SO0306at 312.033 kb on + strand, within SO0306at 312.041 kb on - strand, within SO0306at 312.041 kb on - strand, within SO0306at 312.041 kb on - strand, within SO0306at 312.090 kb on + strand, within SO0306at 312.100 kb on - strand, within SO0306at 312.125 kb on + strand, within SO0306at 312.304 kb on + strand, within SO0306at 312.339 kb on - strand, within SO0306at 312.365 kb on + strand, within SO0306at 312.437 kb on + strand, within SO0306at 312.445 kb on - strand, within SO0306at 312.445 kb on - strand, within SO0306at 312.457 kb on - strand, within SO0306at 312.512 kb on - strand, within SO0306at 312.514 kb on + strand, within SO0306at 312.540 kb on + strandat 312.626 kb on - strandat 312.751 kb on + strandat 312.798 kb on - strandat 312.845 kb on + strandat 312.845 kb on + strandat 312.845 kb on + strandat 312.845 kb on + strandat 312.845 kb on + strandat 312.853 kb on - strandat 312.853 kb on - strandat 312.853 kb on - strandat 312.853 kb on - strandat 312.853 kb on - strandat 312.972 kb on + strandat 312.980 kb on - strandat 312.980 kb on - strandat 313.001 kb on - strandat 313.027 kb on + strandat 313.074 kb on + strandat 313.086 kb on + strandat 313.162 kb on + strand, within SO0308at 313.279 kb on + strand, within SO0308at 313.302 kb on + strand, within SO0308at 313.322 kb on + strand, within SO0308at 313.334 kb on + strand, within SO0308at 313.360 kb on + strand, within SO0308at 313.360 kb on + strand, within SO0308at 313.368 kb on - strand, within SO0308at 313.457 kb on + strand, within SO0308at 313.468 kb on + strand, within SO0308at 313.468 kb on + strand, within SO0308at 313.476 kb on - strand, within SO0308at 313.476 kb on - strand, within SO0308at 313.522 kb on - strand, within SO0308at 313.567 kb on + strand, within SO0308at 313.573 kb on + strand, within SO0308at 313.603 kb on - strand, within SO0308at 313.671 kb on - strand, within SO0308

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction SBM - no RNA protect
remove
310,281 - +0.1
310,367 - +0.4
310,388 - +0.1
310,506 + -1.0
310,527 + -0.3
310,544 + +0.2
310,552 - +0.6
310,552 - +1.3
310,552 - -0.6
310,552 - +1.5
310,552 - -0.5
310,564 + +0.7
310,597 - +0.5
310,617 + -1.7
310,649 + +0.4
310,657 - -0.7
310,707 + -0.5
310,707 + +0.3
310,707 + +0.6
310,707 + +0.5
310,707 + +0.8
310,707 + +0.5
310,715 - -0.4
310,770 - SO0305 0.21 +0.1
310,820 - SO0305 0.65 +0.4
310,917 + +0.1
310,930 + -0.5
310,962 + -0.5
311,086 - +0.0
311,153 - -1.3
311,234 + -0.1
311,242 - -0.4
311,242 - +0.4
311,268 + +0.0
311,269 + +1.9
311,296 - +0.6
311,502 - SO0306 0.22 -0.2
311,520 + SO0306 0.23 +1.3
311,574 - SO0306 0.26 +0.3
311,648 + SO0306 0.31 +0.1
311,741 + SO0306 0.37 +1.1
311,807 + SO0306 0.42 +0.6
311,807 + SO0306 0.42 +0.8
311,807 + SO0306 0.42 +0.9
311,838 - SO0306 0.44 +0.1
311,843 + SO0306 0.44 +1.2
311,843 - SO0306 0.44 +0.1
311,886 + SO0306 0.47 +0.6
311,893 - SO0306 0.47 +0.5
311,904 - SO0306 0.48 +1.0
311,975 + SO0306 0.53 +0.2
311,989 + SO0306 0.54 +1.0
312,033 + SO0306 0.57 +0.5
312,041 - SO0306 0.57 -0.2
312,041 - SO0306 0.57 +0.7
312,041 - SO0306 0.57 +0.0
312,090 + SO0306 0.60 +0.7
312,100 - SO0306 0.61 +1.4
312,125 + SO0306 0.63 -0.2
312,304 + SO0306 0.75 +0.1
312,339 - SO0306 0.77 +0.5
312,365 + SO0306 0.79 +0.3
312,437 + SO0306 0.83 +1.0
312,445 - SO0306 0.84 +1.5
312,445 - SO0306 0.84 +2.5
312,457 - SO0306 0.85 +1.2
312,512 - SO0306 0.88 +0.4
312,514 + SO0306 0.88 -1.9
312,540 + +2.0
312,626 - +1.0
312,751 + -0.1
312,798 - +1.4
312,845 + -0.1
312,845 + -0.3
312,845 + +0.4
312,845 + +0.6
312,845 + +0.3
312,853 - +0.5
312,853 - +0.1
312,853 - -0.5
312,853 - +0.7
312,853 - +0.0
312,972 + +0.7
312,980 - -1.4
312,980 - -0.5
313,001 - -0.3
313,027 + +0.5
313,074 + +0.1
313,086 + -0.2
313,162 + SO0308 0.14 -0.3
313,279 + SO0308 0.24 +0.1
313,302 + SO0308 0.26 +0.3
313,322 + SO0308 0.27 -1.9
313,334 + SO0308 0.28 +0.9
313,360 + SO0308 0.30 -0.8
313,360 + SO0308 0.30 +1.5
313,368 - SO0308 0.31 +1.5
313,457 + SO0308 0.38 +0.4
313,468 + SO0308 0.39 -0.8
313,468 + SO0308 0.39 -0.2
313,476 - SO0308 0.40 +0.9
313,476 - SO0308 0.40 -0.3
313,522 - SO0308 0.44 +0.1
313,567 + SO0308 0.47 -0.3
313,573 + SO0308 0.48 -0.4
313,603 - SO0308 0.50 -0.2
313,671 - SO0308 0.56 +0.2

Or see this region's nucleotide sequence