Experiment: Ying_all64 rep A; 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 ylcH and ybcN overlap by 4 nucleotides ybcN and ninE overlap by 1 nucleotides ninE and ybcO overlap by 8 nucleotides ybcO and rusA overlap by 4 nucleotides rusA and ylcG overlap by 4 nucleotides ylcG and ybcQ are separated by 85 nucleotides ybcQ and nmpC are separated by 189 nucleotides
b4588: ylcH - hypothetical protein, DLP12 prophage (RefSeq), at 571,591 to 571,692
ylcH
b0547: ybcN - DLP12 prophage; predicted protein (NCBI), at 571,689 to 572,144
ybcN
b0548: ninE - DLP12 prophage; conserved protein (NCBI), at 572,144 to 572,314
ninE
b0549: ybcO - DLP12 prophage; predicted protein (NCBI), at 572,307 to 572,597
ybcO
b0550: rusA - DLP12 prophage; endonuclease RUS (NCBI), at 572,594 to 572,956
rusA
b4509: ylcG - DLP12 prophage; predicted protein (NCBI), at 572,953 to 573,093
ylcG
b0551: ybcQ - DLP12 prophage; predicted antitermination protein (NCBI), at 573,179 to 573,562
ybcQ
b0553: nmpC - DLP12 prophage; truncated outer membrane porin (pseudogene) (RefSeq), at 573,752 to 573,809
nmpC
Position (kb) 572
573 Strain fitness (log2 ratio) -2
-1
0
1
2 at 571.596 kb on + strand at 571.596 kb on - strand at 571.596 kb on - strand at 571.602 kb on - strand, within ylcH at 571.618 kb on + strand, within ylcH at 571.623 kb on - strand, within ylcH at 571.629 kb on + strand, within ylcH at 571.638 kb on - strand, within ylcH at 571.671 kb on + strand, within ylcH at 571.681 kb on + strand, within ylcH at 571.681 kb on + strand, within ylcH at 571.682 kb on - strand at 571.682 kb on - strand at 571.682 kb on - strand at 571.682 kb on - strand at 571.682 kb on - strand at 571.682 kb on - strand at 571.682 kb on - strand at 571.687 kb on + strand at 571.694 kb on - strand at 571.695 kb on - strand at 571.752 kb on + strand, within ybcN at 571.752 kb on + strand, within ybcN at 571.909 kb on + strand, within ybcN at 571.931 kb on + strand, within ybcN at 571.937 kb on - strand, within ybcN at 571.939 kb on - strand, within ybcN at 571.939 kb on - strand, within ybcN at 572.055 kb on + strand, within ybcN at 572.068 kb on - strand, within ybcN at 572.179 kb on + strand, within ninE at 572.179 kb on + strand, within ninE at 572.179 kb on + strand, within ninE at 572.195 kb on - strand, within ninE at 572.214 kb on - strand, within ninE at 572.343 kb on - strand, within ybcO at 572.557 kb on - strand, within ybcO at 572.617 kb on + strand at 572.625 kb on - strand at 572.679 kb on - strand, within rusA at 572.679 kb on - strand, within rusA at 572.697 kb on - strand, within rusA at 572.697 kb on - strand, within rusA at 572.780 kb on + strand, within rusA at 572.899 kb on - strand, within rusA at 572.981 kb on - strand, within ylcG at 573.031 kb on + strand, within ylcG at 573.031 kb on + strand, within ylcG at 573.078 kb on - strand, within ylcG at 573.080 kb on + strand at 573.088 kb on - strand at 573.094 kb on + strand at 573.141 kb on + strand at 573.164 kb on + strand at 573.164 kb on + strand at 573.183 kb on + strand at 573.186 kb on + strand at 573.224 kb on + strand, within ybcQ at 573.224 kb on + strand, within ybcQ at 573.231 kb on + strand, within ybcQ at 573.231 kb on + strand, within ybcQ at 573.239 kb on + strand, within ybcQ at 573.242 kb on + strand, within ybcQ at 573.247 kb on - strand, within ybcQ at 573.267 kb on + strand, within ybcQ at 573.267 kb on + strand, within ybcQ at 573.310 kb on + strand, within ybcQ at 573.310 kb on + strand, within ybcQ at 573.331 kb on - strand, within ybcQ at 573.335 kb on + strand, within ybcQ at 573.335 kb on + strand, within ybcQ at 573.343 kb on + strand, within ybcQ at 573.343 kb on + strand, within ybcQ at 573.343 kb on + strand, within ybcQ at 573.344 kb on + strand, within ybcQ at 573.344 kb on + strand, within ybcQ at 573.344 kb on + strand, within ybcQ at 573.358 kb on + strand, within ybcQ at 573.358 kb on + strand, within ybcQ at 573.411 kb on + strand, within ybcQ at 573.423 kb on + strand, within ybcQ at 573.423 kb on + strand, within ybcQ at 573.424 kb on + strand, within ybcQ at 573.430 kb on + strand, within ybcQ at 573.430 kb on + strand, within ybcQ at 573.434 kb on + strand, within ybcQ at 573.434 kb on + strand, within ybcQ at 573.434 kb on + strand, within ybcQ at 573.437 kb on + strand, within ybcQ at 573.437 kb on + strand, within ybcQ at 573.442 kb on + strand, within ybcQ at 573.442 kb on + strand, within ybcQ at 573.442 kb on + strand, within ybcQ at 573.442 kb on + strand, within ybcQ at 573.442 kb on + strand, within ybcQ at 573.442 kb on + strand, within ybcQ at 573.470 kb on + strand, within ybcQ at 573.488 kb on + strand, within ybcQ at 573.512 kb on + strand, within ybcQ at 573.652 kb on - strand at 573.652 kb on - strand at 573.665 kb on - strand at 573.665 kb on - strand at 573.665 kb on - strand at 573.665 kb on - strand at 573.665 kb on - strand at 573.678 kb on - strand at 573.678 kb on - strand at 573.678 kb on - strand at 573.684 kb on + strand at 573.687 kb on - strand at 573.687 kb on - strand at 573.691 kb on - strand at 573.706 kb on - strand at 573.707 kb on - strand at 573.707 kb on - strand at 573.712 kb on - strand at 573.731 kb on - strand at 573.731 kb on - strand at 573.731 kb on - strand at 573.731 kb on - strand at 573.758 kb on - strand, within nmpC at 573.758 kb on - strand, within nmpC at 573.758 kb on - strand, within nmpC at 573.767 kb on - strand, within nmpC at 573.767 kb on - strand, within nmpC at 573.767 kb on - strand, within nmpC at 573.767 kb on - strand, within nmpC at 573.767 kb on - strand, within nmpC at 573.768 kb on - strand, within nmpC at 573.777 kb on - strand, within nmpC at 573.777 kb on - strand, within nmpC at 573.777 kb on - strand, within nmpC at 573.777 kb on - strand, within nmpC at 573.777 kb on - strand, within nmpC at 573.777 kb on - strand, within nmpC at 573.777 kb on - strand, within nmpC at 573.778 kb on - strand, within nmpC at 573.778 kb on - strand, within nmpC at 573.780 kb on - strand, within nmpC at 573.780 kb on - strand, within nmpC at 573.792 kb on + strand, within nmpC at 573.792 kb on + strand, within nmpC at 573.795 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.801 kb on - strand, within nmpC at 573.803 kb on - strand, within nmpC at 573.816 kb on - strand at 573.827 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_all64 rep A; time point 3 remove 571,596 + -0.6 571,596 - -0.1 571,596 - +0.2 571,602 - ylcH b4588 0.11 +0.1 571,618 + ylcH b4588 0.26 -0.6 571,623 - ylcH b4588 0.31 -0.5 571,629 + ylcH b4588 0.37 +0.4 571,638 - ylcH b4588 0.46 -0.1 571,671 + ylcH b4588 0.78 -2.5 571,681 + ylcH b4588 0.88 -0.6 571,681 + ylcH b4588 0.88 +0.5 571,682 - -0.4 571,682 - -0.4 571,682 - -0.1 571,682 - +0.2 571,682 - +0.6 571,682 - -0.1 571,682 - +0.3 571,687 + -1.1 571,694 - +0.8 571,695 - -0.4 571,752 + ybcN b0547 0.14 +0.2 571,752 + ybcN b0547 0.14 +0.3 571,909 + ybcN b0547 0.48 -0.3 571,931 + ybcN b0547 0.53 -0.0 571,937 - ybcN b0547 0.54 -0.9 571,939 - ybcN b0547 0.55 +0.2 571,939 - ybcN b0547 0.55 -0.0 572,055 + ybcN b0547 0.80 -0.1 572,068 - ybcN b0547 0.83 +0.7 572,179 + ninE b0548 0.20 -0.7 572,179 + ninE b0548 0.20 -0.3 572,179 + ninE b0548 0.20 -0.4 572,195 - ninE b0548 0.30 -0.5 572,214 - ninE b0548 0.41 -0.1 572,343 - ybcO b0549 0.12 -0.2 572,557 - ybcO b0549 0.86 +0.0 572,617 + +0.4 572,625 - +0.4 572,679 - rusA b0550 0.23 +0.5 572,679 - rusA b0550 0.23 -0.1 572,697 - rusA b0550 0.28 +1.0 572,697 - rusA b0550 0.28 -0.6 572,780 + rusA b0550 0.51 +0.3 572,899 - rusA b0550 0.84 +0.7 572,981 - ylcG b4509 0.20 -0.7 573,031 + ylcG b4509 0.55 +0.2 573,031 + ylcG b4509 0.55 +0.3 573,078 - ylcG b4509 0.89 +2.0 573,080 + -0.1 573,088 - -0.3 573,094 + +0.1 573,141 + -0.5 573,164 + +0.1 573,164 + -0.8 573,183 + -0.3 573,186 + -0.2 573,224 + ybcQ b0551 0.12 +0.0 573,224 + ybcQ b0551 0.12 +0.6 573,231 + ybcQ b0551 0.14 -0.1 573,231 + ybcQ b0551 0.14 +0.6 573,239 + ybcQ b0551 0.16 -0.0 573,242 + ybcQ b0551 0.16 -0.3 573,247 - ybcQ b0551 0.18 +2.0 573,267 + ybcQ b0551 0.23 +0.0 573,267 + ybcQ b0551 0.23 -0.3 573,310 + ybcQ b0551 0.34 +0.5 573,310 + ybcQ b0551 0.34 -0.1 573,331 - ybcQ b0551 0.40 +2.0 573,335 + ybcQ b0551 0.41 -0.4 573,335 + ybcQ b0551 0.41 +0.4 573,343 + ybcQ b0551 0.43 +0.2 573,343 + ybcQ b0551 0.43 +0.0 573,343 + ybcQ b0551 0.43 +0.3 573,344 + ybcQ b0551 0.43 -0.1 573,344 + ybcQ b0551 0.43 +0.2 573,344 + ybcQ b0551 0.43 -0.4 573,358 + ybcQ b0551 0.47 -1.1 573,358 + ybcQ b0551 0.47 +0.5 573,411 + ybcQ b0551 0.60 -0.9 573,423 + ybcQ b0551 0.64 +0.2 573,423 + ybcQ b0551 0.64 -0.1 573,424 + ybcQ b0551 0.64 +0.0 573,430 + ybcQ b0551 0.65 -0.6 573,430 + ybcQ b0551 0.65 +0.0 573,434 + ybcQ b0551 0.66 +0.1 573,434 + ybcQ b0551 0.66 -0.1 573,434 + ybcQ b0551 0.66 -0.1 573,437 + ybcQ b0551 0.67 -0.2 573,437 + ybcQ b0551 0.67 +0.3 573,442 + ybcQ b0551 0.68 +0.2 573,442 + ybcQ b0551 0.68 +0.5 573,442 + ybcQ b0551 0.68 +0.6 573,442 + ybcQ b0551 0.68 +0.0 573,442 + ybcQ b0551 0.68 -0.1 573,442 + ybcQ b0551 0.68 -0.2 573,470 + ybcQ b0551 0.76 -0.1 573,488 + ybcQ b0551 0.80 +1.1 573,512 + ybcQ b0551 0.87 +0.1 573,652 - +0.1 573,652 - -0.3 573,665 - +0.5 573,665 - +0.1 573,665 - +0.1 573,665 - -0.4 573,665 - -0.0 573,678 - -0.2 573,678 - +0.3 573,678 - +0.3 573,684 + +1.3 573,687 - -0.6 573,687 - +0.3 573,691 - +0.2 573,706 - +1.2 573,707 - -0.5 573,707 - +0.2 573,712 - +0.5 573,731 - +0.2 573,731 - +1.2 573,731 - -1.3 573,731 - -0.8 573,758 - nmpC b0553 0.10 +0.3 573,758 - nmpC b0553 0.10 +0.4 573,758 - nmpC b0553 0.10 -0.5 573,767 - nmpC b0553 0.26 +0.2 573,767 - nmpC b0553 0.26 +0.3 573,767 - nmpC b0553 0.26 +0.6 573,767 - nmpC b0553 0.26 +0.0 573,767 - nmpC b0553 0.26 +0.1 573,768 - nmpC b0553 0.28 +0.2 573,777 - nmpC b0553 0.43 -0.1 573,777 - nmpC b0553 0.43 -0.4 573,777 - nmpC b0553 0.43 +0.1 573,777 - nmpC b0553 0.43 +0.2 573,777 - nmpC b0553 0.43 +0.5 573,777 - nmpC b0553 0.43 +0.2 573,777 - nmpC b0553 0.43 +0.9 573,778 - nmpC b0553 0.45 -0.1 573,778 - nmpC b0553 0.45 +0.0 573,780 - nmpC b0553 0.48 -0.2 573,780 - nmpC b0553 0.48 +0.2 573,792 + nmpC b0553 0.69 +1.0 573,792 + nmpC b0553 0.69 +2.0 573,795 - nmpC b0553 0.74 +0.6 573,801 - nmpC b0553 0.84 -1.9 573,801 - nmpC b0553 0.84 -0.2 573,801 - nmpC b0553 0.84 -0.2 573,801 - nmpC b0553 0.84 +0.7 573,801 - nmpC b0553 0.84 -0.1 573,801 - nmpC b0553 0.84 +0.2 573,801 - nmpC b0553 0.84 -2.5 573,801 - nmpC b0553 0.84 +0.0 573,801 - nmpC b0553 0.84 +0.6 573,801 - nmpC b0553 0.84 +0.5 573,801 - nmpC b0553 0.84 -0.1 573,801 - nmpC b0553 0.84 +0.1 573,803 - nmpC b0553 0.88 +0.0 573,816 - +0.1 573,827 - +0.1
Or see this region's nucleotide sequence