Strain Fitness in Variovorax sp. SCN45 around GFF4851

Experiment: M9 with Supernatant from Cyptococcus

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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 ntGFF4849 and GFF4850 overlap by 4 nucleotidesGFF4850 and GFF4851 overlap by 4 nucleotidesGFF4851 and GFF4852 are separated by 217 nucleotidesGFF4852 and GFF4853 are separated by 25 nucleotides GFF4849 - Conjugative transfer protein TrbB, at 218,804 to 219,841 GFF4849 GFF4850 - CopG domain-containing protein, at 219,838 to 220,302 GFF4850 GFF4851 - Coupling protein VirD4, ATPase required for T-DNA transfer, at 220,299 to 222,317 GFF4851 GFF4852 - Conjugative transfer protein TrbK, at 222,535 to 222,765 GFF4852 GFF4853 - Transcriptional regulator, LysR family, at 222,791 to 223,705 GFF4853 Position (kb) 220 221 222 223Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 219.453 kb on + strand, within GFF4849at 219.841 kb on + strandat 219.841 kb on + strandat 219.842 kb on - strandat 219.842 kb on - strandat 219.842 kb on - strandat 220.302 kb on + strandat 220.302 kb on + strandat 220.302 kb on + strandat 220.302 kb on + strandat 220.302 kb on + strandat 220.302 kb on + strandat 220.302 kb on + strandat 220.303 kb on - strandat 220.303 kb on - strandat 220.303 kb on - strandat 220.303 kb on - strandat 220.303 kb on - strandat 220.303 kb on - strandat 220.447 kb on + strandat 220.447 kb on + strandat 220.447 kb on + strandat 220.447 kb on + strandat 220.447 kb on + strandat 220.447 kb on + strandat 220.447 kb on + strandat 220.448 kb on - strandat 220.448 kb on - strandat 220.448 kb on - strandat 220.448 kb on - strandat 220.681 kb on + strand, within GFF4851at 220.681 kb on + strand, within GFF4851at 220.682 kb on - strand, within GFF4851at 220.682 kb on - strand, within GFF4851at 220.684 kb on + strand, within GFF4851at 220.685 kb on - strand, within GFF4851at 220.758 kb on + strand, within GFF4851at 220.758 kb on + strand, within GFF4851at 220.759 kb on - strand, within GFF4851at 220.759 kb on - strand, within GFF4851at 220.759 kb on - strand, within GFF4851at 220.847 kb on - strand, within GFF4851at 220.975 kb on + strand, within GFF4851at 220.976 kb on - strand, within GFF4851at 220.976 kb on - strand, within GFF4851at 221.103 kb on + strand, within GFF4851at 221.103 kb on + strand, within GFF4851at 221.103 kb on + strand, within GFF4851at 221.103 kb on + strand, within GFF4851at 221.104 kb on - strand, within GFF4851at 221.104 kb on - strand, within GFF4851at 221.234 kb on - strand, within GFF4851at 221.234 kb on - strand, within GFF4851at 221.534 kb on - strand, within GFF4851at 221.534 kb on - strand, within GFF4851at 221.534 kb on - strand, within GFF4851at 221.534 kb on - strand, within GFF4851at 221.534 kb on - strand, within GFF4851at 221.692 kb on + strand, within GFF4851at 221.906 kb on - strand, within GFF4851at 221.906 kb on - strand, within GFF4851at 221.906 kb on - strand, within GFF4851at 221.906 kb on - strand, within GFF4851at 221.906 kb on - strand, within GFF4851at 221.999 kb on - strand, within GFF4851at 221.999 kb on - strand, within GFF4851at 222.054 kb on + strand, within GFF4851at 222.054 kb on + strand, within GFF4851at 222.054 kb on + strand, within GFF4851at 222.054 kb on + strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.055 kb on - strand, within GFF4851at 222.108 kb on - strand, within GFF4851at 222.108 kb on - strand, within GFF4851at 222.118 kb on + strandat 222.163 kb on + strandat 222.163 kb on + strandat 222.164 kb on - strandat 222.164 kb on - strandat 222.164 kb on - strandat 222.207 kb on + strandat 222.207 kb on + strandat 222.207 kb on + strandat 222.207 kb on + strandat 222.207 kb on + strandat 222.208 kb on - strandat 222.208 kb on - strandat 222.208 kb on - strandat 222.208 kb on - strandat 222.214 kb on + strandat 222.252 kb on + strandat 222.252 kb on + strandat 222.333 kb on + strandat 222.399 kb on - strandat 222.452 kb on - strandat 222.452 kb on - strandat 222.492 kb on + strandat 222.492 kb on + strandat 222.493 kb on - strandat 222.493 kb on - strandat 222.493 kb on - strandat 222.493 kb on - strandat 222.531 kb on + strandat 222.531 kb on + strandat 222.532 kb on - strandat 222.532 kb on - strandat 222.536 kb on + strandat 222.536 kb on + strandat 222.536 kb on + strandat 222.537 kb on - strandat 222.537 kb on - strandat 222.537 kb on - strandat 222.537 kb on - strandat 222.897 kb on + strand, within GFF4853at 222.897 kb on + strand, within GFF4853at 222.897 kb on + strand, within GFF4853at 222.897 kb on + strand, within GFF4853at 222.897 kb on + strand, within GFF4853at 222.897 kb on + strand, within GFF4853at 222.897 kb on + strand, within GFF4853at 222.897 kb on + strand, within GFF4853at 222.897 kb on + strand, within GFF4853at 222.898 kb on - strand, within GFF4853at 222.898 kb on - strand, within GFF4853at 222.898 kb on - strand, within GFF4853at 222.898 kb on - strand, within GFF4853at 222.898 kb on - strand, within GFF4853at 222.898 kb on - strand, within GFF4853at 222.898 kb on - strand, within GFF4853at 222.898 kb on - strand, within GFF4853at 222.898 kb on - strand, within GFF4853at 223.010 kb on + strand, within GFF4853at 223.010 kb on + strand, within GFF4853at 223.010 kb on + strand, within GFF4853at 223.011 kb on - strand, within GFF4853at 223.011 kb on - strand, within GFF4853at 223.011 kb on - strand, within GFF4853at 223.011 kb on - strand, within GFF4853at 223.011 kb on - strand, within GFF4853at 223.029 kb on + strand, within GFF4853at 223.029 kb on + strand, within GFF4853at 223.030 kb on - strand, within GFF4853at 223.030 kb on - strand, within GFF4853at 223.030 kb on - strand, within GFF4853at 223.030 kb on - strand, within GFF4853at 223.030 kb on - strand, within GFF4853at 223.030 kb on - strand, within GFF4853at 223.030 kb on - strand, within GFF4853at 223.030 kb on - strand, within GFF4853at 223.069 kb on - strand, within GFF4853at 223.069 kb on - strand, within GFF4853at 223.112 kb on + strand, within GFF4853at 223.284 kb on + strand, within GFF4853at 223.284 kb on + strand, within GFF4853at 223.284 kb on + strand, within GFF4853at 223.284 kb on + strand, within GFF4853at 223.284 kb on + strand, within GFF4853at 223.284 kb on + strand, within GFF4853at 223.284 kb on + strand, within GFF4853at 223.284 kb on + strand, within GFF4853at 223.284 kb on + strand, within GFF4853at 223.285 kb on - strand, within GFF4853at 223.285 kb on - strand, within GFF4853at 223.285 kb on - strand, within GFF4853at 223.285 kb on - strand, within GFF4853

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with Supernatant from Cyptococcus
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219,453 + GFF4849 0.63 -1.5
219,841 + +0.7
219,841 + -0.4
219,842 - -0.3
219,842 - +0.4
219,842 - -0.6
220,302 + +0.4
220,302 + -0.3
220,302 + +0.0
220,302 + -0.2
220,302 + +0.8
220,302 + -0.4
220,302 + +0.3
220,303 - +0.7
220,303 - -0.1
220,303 - +0.4
220,303 - -0.6
220,303 - -0.1
220,303 - +0.5
220,447 + +0.3
220,447 + +0.8
220,447 + -0.0
220,447 + -2.1
220,447 + -0.9
220,447 + +0.0
220,447 + +0.4
220,448 - +0.4
220,448 - -0.8
220,448 - -0.2
220,448 - +0.3
220,681 + GFF4851 0.19 +0.4
220,681 + GFF4851 0.19 +0.4
220,682 - GFF4851 0.19 -0.3
220,682 - GFF4851 0.19 -0.0
220,684 + GFF4851 0.19 -0.0
220,685 - GFF4851 0.19 +0.1
220,758 + GFF4851 0.23 -0.1
220,758 + GFF4851 0.23 -0.6
220,759 - GFF4851 0.23 -0.5
220,759 - GFF4851 0.23 +0.5
220,759 - GFF4851 0.23 -0.3
220,847 - GFF4851 0.27 +2.0
220,975 + GFF4851 0.33 +0.3
220,976 - GFF4851 0.34 +0.7
220,976 - GFF4851 0.34 +0.0
221,103 + GFF4851 0.40 -1.2
221,103 + GFF4851 0.40 -0.3
221,103 + GFF4851 0.40 +0.5
221,103 + GFF4851 0.40 +0.2
221,104 - GFF4851 0.40 +1.0
221,104 - GFF4851 0.40 +0.6
221,234 - GFF4851 0.46 -0.7
221,234 - GFF4851 0.46 -0.6
221,534 - GFF4851 0.61 -0.9
221,534 - GFF4851 0.61 +0.6
221,534 - GFF4851 0.61 -0.2
221,534 - GFF4851 0.61 +0.1
221,534 - GFF4851 0.61 -2.1
221,692 + GFF4851 0.69 +0.6
221,906 - GFF4851 0.80 -0.3
221,906 - GFF4851 0.80 +0.3
221,906 - GFF4851 0.80 +0.1
221,906 - GFF4851 0.80 -0.9
221,906 - GFF4851 0.80 +1.0
221,999 - GFF4851 0.84 -0.6
221,999 - GFF4851 0.84 +1.1
222,054 + GFF4851 0.87 -0.2
222,054 + GFF4851 0.87 -0.9
222,054 + GFF4851 0.87 +1.1
222,054 + GFF4851 0.87 +0.0
222,055 - GFF4851 0.87 -1.8
222,055 - GFF4851 0.87 +0.0
222,055 - GFF4851 0.87 +0.1
222,055 - GFF4851 0.87 -0.8
222,055 - GFF4851 0.87 -0.1
222,055 - GFF4851 0.87 +0.1
222,055 - GFF4851 0.87 +0.0
222,055 - GFF4851 0.87 +2.1
222,055 - GFF4851 0.87 +0.2
222,055 - GFF4851 0.87 -0.5
222,055 - GFF4851 0.87 +0.4
222,108 - GFF4851 0.90 -0.8
222,108 - GFF4851 0.90 -0.3
222,118 + -0.4
222,163 + +1.1
222,163 + +0.1
222,164 - +0.8
222,164 - +0.2
222,164 - -0.0
222,207 + -0.0
222,207 + -2.8
222,207 + -0.8
222,207 + +1.1
222,207 + -0.6
222,208 - -1.9
222,208 - -0.5
222,208 - +1.4
222,208 - +0.7
222,214 + -0.6
222,252 + +0.3
222,252 + +1.1
222,333 + +2.0
222,399 - -0.9
222,452 - +2.2
222,452 - -1.5
222,492 + +0.5
222,492 + -0.4
222,493 - +2.1
222,493 - -0.1
222,493 - +0.7
222,493 - -0.7
222,531 + +0.9
222,531 + +0.4
222,532 - -0.4
222,532 - -0.2
222,536 + -0.2
222,536 + +2.1
222,536 + +0.4
222,537 - +0.5
222,537 - +0.4
222,537 - -0.1
222,537 - -1.1
222,897 + GFF4853 0.12 +0.9
222,897 + GFF4853 0.12 +0.1
222,897 + GFF4853 0.12 +0.9
222,897 + GFF4853 0.12 -0.4
222,897 + GFF4853 0.12 -1.2
222,897 + GFF4853 0.12 +0.8
222,897 + GFF4853 0.12 +0.3
222,897 + GFF4853 0.12 -0.0
222,897 + GFF4853 0.12 -1.3
222,898 - GFF4853 0.12 +0.4
222,898 - GFF4853 0.12 +0.2
222,898 - GFF4853 0.12 +0.3
222,898 - GFF4853 0.12 +1.2
222,898 - GFF4853 0.12 +1.4
222,898 - GFF4853 0.12 +0.4
222,898 - GFF4853 0.12 -0.1
222,898 - GFF4853 0.12 -1.3
222,898 - GFF4853 0.12 +0.1
223,010 + GFF4853 0.24 +0.0
223,010 + GFF4853 0.24 -1.3
223,010 + GFF4853 0.24 -0.8
223,011 - GFF4853 0.24 +0.2
223,011 - GFF4853 0.24 -0.4
223,011 - GFF4853 0.24 -0.2
223,011 - GFF4853 0.24 +0.3
223,011 - GFF4853 0.24 +0.4
223,029 + GFF4853 0.26 -0.3
223,029 + GFF4853 0.26 +0.3
223,030 - GFF4853 0.26 +0.8
223,030 - GFF4853 0.26 -0.2
223,030 - GFF4853 0.26 +0.4
223,030 - GFF4853 0.26 +0.4
223,030 - GFF4853 0.26 -0.0
223,030 - GFF4853 0.26 -0.4
223,030 - GFF4853 0.26 +0.6
223,030 - GFF4853 0.26 +0.4
223,069 - GFF4853 0.30 -0.6
223,069 - GFF4853 0.30 -1.2
223,112 + GFF4853 0.35 +0.1
223,284 + GFF4853 0.54 -0.4
223,284 + GFF4853 0.54 -0.3
223,284 + GFF4853 0.54 -0.3
223,284 + GFF4853 0.54 +0.1
223,284 + GFF4853 0.54 -0.3
223,284 + GFF4853 0.54 -0.3
223,284 + GFF4853 0.54 +1.4
223,284 + GFF4853 0.54 -0.2
223,284 + GFF4853 0.54 +0.1
223,285 - GFF4853 0.54 +0.8
223,285 - GFF4853 0.54 -1.5
223,285 - GFF4853 0.54 +1.4
223,285 - GFF4853 0.54 +0.5

Or see this region's nucleotide sequence