Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF1341

Experiment: Ying_sugar7 rep A; time point 3

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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.

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500 ntGFF1338 and GFF1339 overlap by 11 nucleotidesGFF1339 and GFF1340 overlap by 1 nucleotidesGFF1340 and GFF1341 are separated by 3 nucleotidesGFF1341 and GFF1342 are separated by 177 nucleotidesGFF1342 and GFF1343 overlap by 1 nucleotides GFF1338 - Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-), at 190,968 to 193,265 GFF1338 GFF1339 - Frataxin homolog CyaY, facilitates iron supply for heme A synthesis or Fe-S cluster assembly, at 193,255 to 193,584 GFF1339 GFF1340 - hypothetical protein, at 193,584 to 193,826 GFF1340 GFF1341 - Diaminopimelate decarboxylase (EC 4.1.1.20), at 193,830 to 195,119 GFF1341 GFF1342 - Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1), at 195,297 to 196,079 GFF1342 GFF1343 - Branched-chain amino acid transport ATP-binding protein LivF (TC 3.A.1.4.1), at 196,079 to 196,789 GFF1343 Position (kb) 193 194 195 196Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2at 192.855 kb on + strand, within GFF1338at 192.856 kb on - strand, within GFF1338at 192.907 kb on - strand, within GFF1338at 193.050 kb on + strandat 193.051 kb on - strandat 193.051 kb on - strandat 193.051 kb on - strandat 193.051 kb on - strandat 193.051 kb on - strandat 193.093 kb on - strandat 193.095 kb on + strandat 193.095 kb on + strandat 193.095 kb on + strandat 193.096 kb on - strandat 193.096 kb on - strandat 193.096 kb on - strandat 193.096 kb on - strandat 193.367 kb on + strand, within GFF1339at 193.367 kb on + strand, within GFF1339at 193.368 kb on - strand, within GFF1339at 193.368 kb on - strand, within GFF1339at 193.368 kb on - strand, within GFF1339at 193.368 kb on - strand, within GFF1339at 193.368 kb on - strand, within GFF1339at 193.368 kb on - strand, within GFF1339at 193.368 kb on - strand, within GFF1339at 193.368 kb on - strand, within GFF1339at 193.499 kb on + strand, within GFF1339at 193.569 kb on - strandat 193.585 kb on + strandat 193.585 kb on + strandat 193.585 kb on + strandat 193.585 kb on + strandat 193.586 kb on - strandat 193.586 kb on - strandat 193.586 kb on - strandat 193.586 kb on - strandat 193.586 kb on - strandat 193.619 kb on + strand, within GFF1340at 193.619 kb on + strand, within GFF1340at 193.619 kb on + strand, within GFF1340at 193.619 kb on + strand, within GFF1340at 193.619 kb on + strand, within GFF1340at 193.620 kb on - strand, within GFF1340at 193.620 kb on - strand, within GFF1340at 193.620 kb on - strand, within GFF1340at 193.620 kb on - strand, within GFF1340at 193.620 kb on - strand, within GFF1340at 193.620 kb on - strand, within GFF1340at 193.620 kb on - strand, within GFF1340at 193.705 kb on + strand, within GFF1340at 193.705 kb on + strand, within GFF1340at 193.706 kb on - strand, within GFF1340at 193.706 kb on - strand, within GFF1340at 193.706 kb on - strand, within GFF1340at 193.959 kb on + strand, within GFF1341at 194.034 kb on + strand, within GFF1341at 194.346 kb on + strand, within GFF1341at 194.347 kb on - strand, within GFF1341at 194.347 kb on - strand, within GFF1341at 194.409 kb on + strand, within GFF1341at 194.745 kb on + strand, within GFF1341at 194.745 kb on + strand, within GFF1341at 194.746 kb on - strand, within GFF1341at 194.820 kb on + strand, within GFF1341at 194.821 kb on - strand, within GFF1341at 195.009 kb on + strandat 195.010 kb on - strandat 195.208 kb on + strandat 195.208 kb on + strandat 195.208 kb on + strandat 195.208 kb on + strandat 195.208 kb on + strandat 195.208 kb on + strandat 195.208 kb on + strandat 195.209 kb on - strandat 195.209 kb on - strandat 195.209 kb on - strandat 195.209 kb on - strandat 195.210 kb on + strandat 195.210 kb on + strandat 195.211 kb on - strandat 195.645 kb on + strand, within GFF1342at 195.645 kb on + strand, within GFF1342at 195.645 kb on + strand, within GFF1342at 195.646 kb on - strand, within GFF1342at 195.646 kb on - strand, within GFF1342at 195.759 kb on + strand, within GFF1342at 195.759 kb on + strand, within GFF1342at 195.760 kb on - strand, within GFF1342at 195.999 kb on + strand, within GFF1342at 195.999 kb on + strand, within GFF1342at 195.999 kb on + strand, within GFF1342at 196.038 kb on + strandat 196.038 kb on + strandat 196.038 kb on + strandat 196.038 kb on + strandat 196.038 kb on + strandat 196.039 kb on - strandat 196.039 kb on - strandat 196.039 kb on - strandat 196.039 kb on - strandat 196.039 kb on - strandat 196.039 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_sugar7 rep A; time point 3
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192,855 + GFF1338 0.82 -1.1
192,856 - GFF1338 0.82 -2.9
192,907 - GFF1338 0.84 -1.3
193,050 + -0.5
193,051 - +0.3
193,051 - -2.5
193,051 - -0.4
193,051 - -0.4
193,051 - +0.1
193,093 - -1.6
193,095 + +0.4
193,095 + -0.1
193,095 + +0.9
193,096 - +0.0
193,096 - -1.2
193,096 - -0.4
193,096 - +0.0
193,367 + GFF1339 0.34 -0.9
193,367 + GFF1339 0.34 +0.1
193,368 - GFF1339 0.34 -1.2
193,368 - GFF1339 0.34 +0.3
193,368 - GFF1339 0.34 -0.7
193,368 - GFF1339 0.34 +0.4
193,368 - GFF1339 0.34 -0.7
193,368 - GFF1339 0.34 +0.0
193,368 - GFF1339 0.34 +0.8
193,368 - GFF1339 0.34 +0.2
193,499 + GFF1339 0.74 -0.5
193,569 - +0.2
193,585 + +0.6
193,585 + +0.4
193,585 + +1.1
193,585 + +0.7
193,586 - +0.3
193,586 - +0.4
193,586 - -0.0
193,586 - +0.3
193,586 - +0.3
193,619 + GFF1340 0.14 +0.2
193,619 + GFF1340 0.14 -4.6
193,619 + GFF1340 0.14 -2.6
193,619 + GFF1340 0.14 -0.0
193,619 + GFF1340 0.14 +1.1
193,620 - GFF1340 0.15 +0.1
193,620 - GFF1340 0.15 -0.2
193,620 - GFF1340 0.15 +0.2
193,620 - GFF1340 0.15 +0.4
193,620 - GFF1340 0.15 -0.3
193,620 - GFF1340 0.15 -0.1
193,620 - GFF1340 0.15 +0.2
193,705 + GFF1340 0.50 -4.4
193,705 + GFF1340 0.50 -3.8
193,706 - GFF1340 0.50 -3.1
193,706 - GFF1340 0.50 -2.3
193,706 - GFF1340 0.50 -4.9
193,959 + GFF1341 0.10 -0.9
194,034 + GFF1341 0.16 -2.6
194,346 + GFF1341 0.40 -3.9
194,347 - GFF1341 0.40 -1.9
194,347 - GFF1341 0.40 -1.6
194,409 + GFF1341 0.45 -2.3
194,745 + GFF1341 0.71 -1.6
194,745 + GFF1341 0.71 -1.3
194,746 - GFF1341 0.71 -3.0
194,820 + GFF1341 0.77 -1.9
194,821 - GFF1341 0.77 -5.3
195,009 + -1.9
195,010 - -2.6
195,208 + +0.2
195,208 + +0.6
195,208 + -0.2
195,208 + -0.5
195,208 + +0.2
195,208 + +0.3
195,208 + -0.3
195,209 - -0.3
195,209 - +0.2
195,209 - +1.0
195,209 - +0.5
195,210 + +0.1
195,210 + +0.7
195,211 - -0.0
195,645 + GFF1342 0.44 -0.1
195,645 + GFF1342 0.44 -0.4
195,645 + GFF1342 0.44 -0.3
195,646 - GFF1342 0.45 +0.4
195,646 - GFF1342 0.45 +2.0
195,759 + GFF1342 0.59 +0.3
195,759 + GFF1342 0.59 +1.0
195,760 - GFF1342 0.59 -0.3
195,999 + GFF1342 0.90 +1.1
195,999 + GFF1342 0.90 +0.0
195,999 + GFF1342 0.90 +0.1
196,038 + +0.8
196,038 + +0.1
196,038 + +1.1
196,038 + -0.1
196,038 + +0.1
196,039 - -0.2
196,039 - -0.0
196,039 - +0.1
196,039 - +0.1
196,039 - +0.3
196,039 - -0.0

Or see this region's nucleotide sequence