Experiment: Ying_Nucleobase14 rep C; time point 3
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.
500 nt ddlA and yaiB are separated by 462 nucleotides yaiB and phoA are separated by 100 nucleotides phoA and psiF are separated by 118 nucleotides psiF and yaiC are separated by 101 nucleotides
b0381: ddlA - D-alanylalanine synthetase (NCBI), at 399,053 to 400,147
ddlA
b0382: yaiB - hypothetical protein (NCBI), at 400,610 to 400,870
yaiB
b0383: phoA - alkaline phosphatase (VIMSS), at 400,971 to 402,386
phoA
b0384: psiF - induced by phosphate starvation (VIMSS), at 402,505 to 402,825
psiF
b0385: yaiC - predicted diguanylate cyclase (NCBI), at 402,927 to 404,042
yaiC
Position (kb) 400
401
402
403 Strain fitness (log2 ratio) -2
-1
0
1
2
3 at 400.092 kb on + strand at 400.092 kb on + strand at 400.093 kb on + strand at 400.093 kb on + strand at 400.168 kb on + strand at 400.178 kb on - strand at 400.240 kb on + strand at 400.240 kb on + strand at 400.251 kb on + strand at 400.258 kb on + strand at 400.263 kb on + strand at 400.264 kb on + strand at 400.282 kb on - strand at 400.288 kb on - strand at 400.373 kb on + strand at 400.559 kb on - strand at 400.561 kb on + strand at 400.638 kb on - strand, within yaiB at 400.667 kb on + strand, within yaiB at 400.675 kb on + strand, within yaiB at 400.684 kb on + strand, within yaiB at 400.692 kb on - strand, within yaiB at 400.692 kb on - strand, within yaiB at 400.692 kb on - strand, within yaiB at 400.707 kb on + strand, within yaiB at 400.715 kb on - strand, within yaiB at 400.750 kb on + strand, within yaiB at 400.762 kb on + strand, within yaiB at 400.762 kb on + strand, within yaiB at 400.762 kb on + strand, within yaiB at 400.770 kb on - strand, within yaiB at 400.770 kb on - strand, within yaiB at 400.775 kb on + strand, within yaiB at 400.777 kb on + strand, within yaiB at 400.777 kb on + strand, within yaiB at 400.777 kb on + strand, within yaiB at 400.777 kb on + strand, within yaiB at 400.782 kb on + strand, within yaiB at 400.783 kb on + strand, within yaiB at 400.783 kb on + strand, within yaiB at 400.783 kb on - strand, within yaiB at 400.783 kb on - strand, within yaiB at 400.783 kb on - strand, within yaiB at 400.812 kb on + strand, within yaiB at 400.815 kb on + strand, within yaiB at 400.815 kb on + strand, within yaiB at 400.816 kb on - strand, within yaiB at 400.823 kb on - strand, within yaiB at 400.828 kb on - strand, within yaiB at 400.835 kb on + strand, within yaiB at 400.865 kb on - strand at 400.898 kb on - strand at 400.899 kb on + strand at 400.901 kb on - strand at 400.901 kb on - strand at 400.915 kb on + strand at 400.915 kb on + strand at 400.982 kb on - strand at 400.992 kb on - strand at 400.998 kb on - strand at 401.004 kb on + strand at 401.006 kb on - strand at 401.006 kb on - strand at 401.015 kb on - strand at 401.015 kb on - strand at 401.020 kb on - strand at 401.078 kb on - strand at 401.086 kb on - strand at 401.088 kb on - strand at 401.088 kb on - strand at 401.091 kb on - strand at 401.091 kb on - strand at 401.105 kb on + strand at 401.113 kb on - strand, within phoA at 401.113 kb on - strand, within phoA at 401.113 kb on - strand, within phoA at 401.120 kb on + strand, within phoA at 401.123 kb on + strand, within phoA at 401.123 kb on + strand, within phoA at 401.125 kb on + strand, within phoA at 401.126 kb on - strand, within phoA at 401.133 kb on - strand, within phoA at 401.192 kb on - strand, within phoA at 401.199 kb on - strand, within phoA at 401.217 kb on - strand, within phoA at 401.271 kb on - strand, within phoA at 401.280 kb on + strand, within phoA at 401.282 kb on + strand, within phoA at 401.290 kb on - strand, within phoA at 401.332 kb on - strand, within phoA at 401.348 kb on + strand, within phoA at 401.348 kb on + strand, within phoA at 401.350 kb on - strand, within phoA at 401.350 kb on - strand, within phoA at 401.350 kb on - strand, within phoA at 401.363 kb on + strand, within phoA at 401.380 kb on + strand, within phoA at 401.486 kb on + strand, within phoA at 401.486 kb on + strand, within phoA at 401.494 kb on - strand, within phoA at 401.503 kb on + strand, within phoA at 401.616 kb on + strand, within phoA at 401.621 kb on + strand, within phoA at 401.653 kb on - strand, within phoA at 401.800 kb on + strand, within phoA at 401.800 kb on + strand, within phoA at 401.808 kb on - strand, within phoA at 401.808 kb on - strand, within phoA at 401.830 kb on - strand, within phoA at 401.839 kb on + strand, within phoA at 401.888 kb on + strand, within phoA at 401.930 kb on - strand, within phoA at 402.081 kb on + strand, within phoA at 402.081 kb on + strand, within phoA at 402.086 kb on - strand, within phoA at 402.144 kb on - strand, within phoA at 402.183 kb on + strand, within phoA at 402.218 kb on - strand, within phoA at 402.218 kb on - strand, within phoA at 402.246 kb on - strand at 402.291 kb on + strand at 402.291 kb on + strand at 402.350 kb on + strand at 402.605 kb on - strand, within psiF at 402.605 kb on - strand, within psiF at 402.689 kb on - strand, within psiF at 402.689 kb on - strand, within psiF at 402.733 kb on - strand, within psiF at 402.733 kb on - strand, within psiF at 402.826 kb on - strand at 402.827 kb on + strand at 402.835 kb on - strand at 402.840 kb on + strand at 402.873 kb on - strand at 402.873 kb on - strand at 403.026 kb on + strand at 403.050 kb on + strand, within yaiC at 403.050 kb on + strand, within yaiC at 403.058 kb on - strand, within yaiC at 403.063 kb on + strand, within yaiC at 403.130 kb on + strand, within yaiC at 403.291 kb on + strand, within yaiC
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_Nucleobase14 rep C; time point 3 remove 400,092 + +0.8 400,092 + +2.8 400,093 + +3.5 400,093 + +0.1 400,168 + +0.6 400,178 - +0.1 400,240 + -0.1 400,240 + -1.0 400,251 + -0.1 400,258 + +1.0 400,263 + +0.5 400,264 + +0.6 400,282 - -1.6 400,288 - -2.6 400,373 + -0.2 400,559 - +1.6 400,561 + +0.6 400,638 - yaiB b0382 0.11 -0.6 400,667 + yaiB b0382 0.22 +0.4 400,675 + yaiB b0382 0.25 +0.4 400,684 + yaiB b0382 0.28 +0.1 400,692 - yaiB b0382 0.31 +0.2 400,692 - yaiB b0382 0.31 +1.3 400,692 - yaiB b0382 0.31 -0.5 400,707 + yaiB b0382 0.37 -0.6 400,715 - yaiB b0382 0.40 -1.6 400,750 + yaiB b0382 0.54 -0.9 400,762 + yaiB b0382 0.58 +0.0 400,762 + yaiB b0382 0.58 +0.7 400,762 + yaiB b0382 0.58 +0.4 400,770 - yaiB b0382 0.61 +0.1 400,770 - yaiB b0382 0.61 -0.8 400,775 + yaiB b0382 0.63 +0.1 400,777 + yaiB b0382 0.64 -0.2 400,777 + yaiB b0382 0.64 +0.3 400,777 + yaiB b0382 0.64 -0.1 400,777 + yaiB b0382 0.64 +0.9 400,782 + yaiB b0382 0.66 +0.0 400,783 + yaiB b0382 0.66 +0.5 400,783 + yaiB b0382 0.66 +0.1 400,783 - yaiB b0382 0.66 +2.5 400,783 - yaiB b0382 0.66 +0.9 400,783 - yaiB b0382 0.66 +0.9 400,812 + yaiB b0382 0.77 -0.3 400,815 + yaiB b0382 0.79 +0.2 400,815 + yaiB b0382 0.79 -0.8 400,816 - yaiB b0382 0.79 +0.3 400,823 - yaiB b0382 0.82 +0.1 400,828 - yaiB b0382 0.84 +0.1 400,835 + yaiB b0382 0.86 +1.1 400,865 - +2.5 400,898 - +1.2 400,899 + +0.3 400,901 - +1.2 400,901 - +1.3 400,915 + -0.7 400,915 + +0.4 400,982 - +0.2 400,992 - +1.2 400,998 - +0.0 401,004 + -0.4 401,006 - +0.3 401,006 - +0.1 401,015 - -2.6 401,015 - +0.1 401,020 - -0.1 401,078 - +2.6 401,086 - -0.1 401,088 - +0.5 401,088 - +0.4 401,091 - +0.5 401,091 - +0.6 401,105 + -0.3 401,113 - phoA b0383 0.10 +0.0 401,113 - phoA b0383 0.10 +0.1 401,113 - phoA b0383 0.10 -0.0 401,120 + phoA b0383 0.11 +0.3 401,123 + phoA b0383 0.11 -0.5 401,123 + phoA b0383 0.11 -0.2 401,125 + phoA b0383 0.11 +0.2 401,126 - phoA b0383 0.11 +0.2 401,133 - phoA b0383 0.11 -1.0 401,192 - phoA b0383 0.16 -0.1 401,199 - phoA b0383 0.16 -0.0 401,217 - phoA b0383 0.17 +0.0 401,271 - phoA b0383 0.21 -0.8 401,280 + phoA b0383 0.22 -0.8 401,282 + phoA b0383 0.22 +0.3 401,290 - phoA b0383 0.23 +0.5 401,332 - phoA b0383 0.25 +0.1 401,348 + phoA b0383 0.27 -0.2 401,348 + phoA b0383 0.27 +0.7 401,350 - phoA b0383 0.27 +0.5 401,350 - phoA b0383 0.27 -0.1 401,350 - phoA b0383 0.27 +0.3 401,363 + phoA b0383 0.28 -0.2 401,380 + phoA b0383 0.29 -0.7 401,486 + phoA b0383 0.36 -0.2 401,486 + phoA b0383 0.36 -0.4 401,494 - phoA b0383 0.37 -0.1 401,503 + phoA b0383 0.38 -0.1 401,616 + phoA b0383 0.46 -0.4 401,621 + phoA b0383 0.46 +0.2 401,653 - phoA b0383 0.48 +0.2 401,800 + phoA b0383 0.59 +0.0 401,800 + phoA b0383 0.59 +0.1 401,808 - phoA b0383 0.59 +0.0 401,808 - phoA b0383 0.59 +0.3 401,830 - phoA b0383 0.61 +1.1 401,839 + phoA b0383 0.61 +0.0 401,888 + phoA b0383 0.65 +0.3 401,930 - phoA b0383 0.68 -0.1 402,081 + phoA b0383 0.78 +0.0 402,081 + phoA b0383 0.78 +0.3 402,086 - phoA b0383 0.79 +0.9 402,144 - phoA b0383 0.83 -0.0 402,183 + phoA b0383 0.86 -0.3 402,218 - phoA b0383 0.88 -0.3 402,218 - phoA b0383 0.88 +0.6 402,246 - +1.4 402,291 + -1.0 402,291 + -0.5 402,350 + -0.6 402,605 - psiF b0384 0.31 +0.9 402,605 - psiF b0384 0.31 -0.2 402,689 - psiF b0384 0.57 -0.8 402,689 - psiF b0384 0.57 -0.0 402,733 - psiF b0384 0.71 +0.1 402,733 - psiF b0384 0.71 -0.0 402,826 - -0.1 402,827 + +0.1 402,835 - +0.1 402,840 + +0.0 402,873 - +0.5 402,873 - +0.6 403,026 + +0.4 403,050 + yaiC b0385 0.11 +0.5 403,050 + yaiC b0385 0.11 +0.7 403,058 - yaiC b0385 0.12 +0.6 403,063 + yaiC b0385 0.12 +0.5 403,130 + yaiC b0385 0.18 +0.4 403,291 + yaiC b0385 0.33 +0.4
Or see this region's nucleotide sequence