Experiment: Ying_sugar7 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 ybcM and ylcH are separated by 116 nucleotides 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
b0546: ybcM - DLP12 prophage; predicted DNA-binding transcriptional regulator (NCBI), at 570,677 to 571,474
ybcM
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
Position (kb) 572
573 Strain fitness (log2 ratio) -2
-1
0
1
2
3 at 571.340 kb on + strand, within ybcM at 571.340 kb on + strand, within ybcM at 571.340 kb on + strand, within ybcM at 571.340 kb on + strand, within ybcM at 571.341 kb on - strand, within ybcM at 571.345 kb on - strand, within ybcM at 571.358 kb on - strand, within ybcM at 571.418 kb on + strand at 571.427 kb on + strand at 571.477 kb on - strand at 571.486 kb on - strand at 571.546 kb on - strand at 571.560 kb on - strand at 571.575 kb on - strand at 571.575 kb on - strand at 571.585 kb on - strand 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
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_sugar7 rep C; time point 3 remove 571,340 + ybcM b0546 0.83 +0.3 571,340 + ybcM b0546 0.83 +1.6 571,340 + ybcM b0546 0.83 -1.3 571,340 + ybcM b0546 0.83 +0.2 571,341 - ybcM b0546 0.83 +2.6 571,345 - ybcM b0546 0.84 +1.1 571,358 - ybcM b0546 0.85 +2.6 571,418 + +0.9 571,427 + +0.5 571,477 - +1.1 571,486 - -0.5 571,546 - +0.1 571,560 - -0.6 571,575 - -0.6 571,575 - +0.4 571,585 - -0.0 571,596 + +0.9 571,596 - +0.4 571,596 - +0.2 571,602 - ylcH b4588 0.11 +0.0 571,618 + ylcH b4588 0.26 +0.1 571,623 - ylcH b4588 0.31 -1.1 571,629 + ylcH b4588 0.37 -1.5 571,638 - ylcH b4588 0.46 +0.1 571,671 + ylcH b4588 0.78 -0.3 571,681 + ylcH b4588 0.88 +0.5 571,681 + ylcH b4588 0.88 +1.3 571,682 - -0.3 571,682 - +0.4 571,682 - -1.1 571,682 - -0.9 571,682 - +0.6 571,682 - -0.1 571,682 - +0.5 571,687 + +0.5 571,694 - +0.5 571,695 - +0.1 571,752 + ybcN b0547 0.14 -0.2 571,752 + ybcN b0547 0.14 -2.7 571,909 + ybcN b0547 0.48 -0.2 571,931 + ybcN b0547 0.53 +0.4 571,937 - ybcN b0547 0.54 +0.3 571,939 - ybcN b0547 0.55 +0.1 571,939 - ybcN b0547 0.55 -0.6 572,055 + ybcN b0547 0.80 -0.9 572,068 - ybcN b0547 0.83 -0.2 572,179 + ninE b0548 0.20 -0.6 572,179 + ninE b0548 0.20 -0.4 572,179 + ninE b0548 0.20 +0.1 572,195 - ninE b0548 0.30 +0.3 572,214 - ninE b0548 0.41 +0.2 572,343 - ybcO b0549 0.12 +1.1 572,557 - ybcO b0549 0.86 +0.5 572,617 + -0.7 572,625 - -0.4 572,679 - rusA b0550 0.23 -0.4 572,679 - rusA b0550 0.23 +0.4 572,697 - rusA b0550 0.28 +1.2 572,697 - rusA b0550 0.28 +0.1 572,780 + rusA b0550 0.51 +0.8 572,899 - rusA b0550 0.84 +1.6 572,981 - ylcG b4509 0.20 -1.0 573,031 + ylcG b4509 0.55 +0.0 573,031 + ylcG b4509 0.55 +0.1 573,078 - ylcG b4509 0.89 +3.6 573,080 + -0.7 573,088 - -1.0 573,094 + -0.2 573,141 + -0.2 573,164 + +0.7 573,164 + -0.7 573,183 + +0.9 573,186 + -0.9 573,224 + ybcQ b0551 0.12 +0.1 573,224 + ybcQ b0551 0.12 -0.4 573,231 + ybcQ b0551 0.14 +0.2 573,231 + ybcQ b0551 0.14 +1.2 573,239 + ybcQ b0551 0.16 +0.2 573,242 + ybcQ b0551 0.16 +0.0 573,247 - ybcQ b0551 0.18 +2.6 573,267 + ybcQ b0551 0.23 +0.4 573,267 + ybcQ b0551 0.23 +0.3 573,310 + ybcQ b0551 0.34 +0.0 573,310 + ybcQ b0551 0.34 +0.2 573,331 - ybcQ b0551 0.40 +2.6 573,335 + ybcQ b0551 0.41 +0.2 573,335 + ybcQ b0551 0.41 +0.1 573,343 + ybcQ b0551 0.43 -0.4 573,343 + ybcQ b0551 0.43 -0.5 573,343 + ybcQ b0551 0.43 -0.2 573,344 + ybcQ b0551 0.43 +0.9 573,344 + ybcQ b0551 0.43 -0.3 573,344 + ybcQ b0551 0.43 +0.3 573,358 + ybcQ b0551 0.47 +1.0 573,358 + ybcQ b0551 0.47 +1.2 573,411 + ybcQ b0551 0.60 +0.7 573,423 + ybcQ b0551 0.64 -0.0 573,423 + ybcQ b0551 0.64 -0.6 573,424 + ybcQ b0551 0.64 +0.1 573,430 + ybcQ b0551 0.65 -1.5 573,430 + ybcQ b0551 0.65 -0.5 573,434 + ybcQ b0551 0.66 +0.3 573,434 + ybcQ b0551 0.66 +0.0 573,434 + ybcQ b0551 0.66 -0.6 573,437 + ybcQ b0551 0.67 -0.5 573,437 + ybcQ b0551 0.67 -0.5 573,442 + ybcQ b0551 0.68 +0.7 573,442 + ybcQ b0551 0.68 +0.5 573,442 + ybcQ b0551 0.68 +0.1 573,442 + ybcQ b0551 0.68 +0.0 573,442 + ybcQ b0551 0.68 -0.4 573,442 + ybcQ b0551 0.68 -1.9 573,470 + ybcQ b0551 0.76 +0.3 573,488 + ybcQ b0551 0.80 -0.2 573,512 + ybcQ b0551 0.87 -0.5
Or see this region's nucleotide sequence