Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS07355

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day6

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntHMPREF1058_RS07360 and HMPREF1058_RS07355 are separated by 76 nucleotidesHMPREF1058_RS07355 and HMPREF1058_RS07350 are separated by 12 nucleotidesHMPREF1058_RS07350 and HMPREF1058_RS07345 are separated by 152 nucleotides HMPREF1058_RS07360: HMPREF1058_RS07360 - hypothetical protein, at 252,796 to 253,725 _RS07360 HMPREF1058_RS07355: HMPREF1058_RS07355 - hypothetical protein, at 253,802 to 254,380 _RS07355 HMPREF1058_RS07350: HMPREF1058_RS07350 - sigma-70 family RNA polymerase sigma factor, at 254,393 to 254,866 _RS07350 HMPREF1058_RS07345: HMPREF1058_RS07345 - hypothetical protein, at 255,019 to 255,690 _RS07345 Position (kb) 253 254 255Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 252.803 kb on - strandat 252.846 kb on + strandat 252.892 kb on + strand, within HMPREF1058_RS07360at 252.912 kb on + strand, within HMPREF1058_RS07360at 252.916 kb on + strand, within HMPREF1058_RS07360at 252.917 kb on - strand, within HMPREF1058_RS07360at 252.966 kb on + strand, within HMPREF1058_RS07360at 252.967 kb on - strand, within HMPREF1058_RS07360at 253.001 kb on + strand, within HMPREF1058_RS07360at 253.001 kb on + strand, within HMPREF1058_RS07360at 253.002 kb on - strand, within HMPREF1058_RS07360at 253.002 kb on - strand, within HMPREF1058_RS07360at 253.004 kb on + strand, within HMPREF1058_RS07360at 253.004 kb on + strand, within HMPREF1058_RS07360at 253.005 kb on - strand, within HMPREF1058_RS07360at 253.152 kb on - strand, within HMPREF1058_RS07360at 253.202 kb on - strand, within HMPREF1058_RS07360at 253.204 kb on + strand, within HMPREF1058_RS07360at 253.205 kb on - strand, within HMPREF1058_RS07360at 253.213 kb on + strand, within HMPREF1058_RS07360at 253.214 kb on - strand, within HMPREF1058_RS07360at 253.214 kb on - strand, within HMPREF1058_RS07360at 253.277 kb on + strand, within HMPREF1058_RS07360at 253.307 kb on - strand, within HMPREF1058_RS07360at 253.307 kb on - strand, within HMPREF1058_RS07360at 253.308 kb on + strand, within HMPREF1058_RS07360at 253.311 kb on - strand, within HMPREF1058_RS07360at 253.316 kb on + strand, within HMPREF1058_RS07360at 253.384 kb on + strand, within HMPREF1058_RS07360at 253.387 kb on + strand, within HMPREF1058_RS07360at 253.435 kb on + strand, within HMPREF1058_RS07360at 253.436 kb on - strand, within HMPREF1058_RS07360at 253.674 kb on + strandat 253.679 kb on - strandat 253.712 kb on + strandat 253.713 kb on - strandat 253.779 kb on + strandat 253.893 kb on + strand, within HMPREF1058_RS07355at 253.894 kb on - strand, within HMPREF1058_RS07355at 253.979 kb on + strand, within HMPREF1058_RS07355at 253.979 kb on + strand, within HMPREF1058_RS07355at 253.981 kb on + strand, within HMPREF1058_RS07355at 254.012 kb on - strand, within HMPREF1058_RS07355at 254.013 kb on + strand, within HMPREF1058_RS07355at 254.014 kb on - strand, within HMPREF1058_RS07355at 254.047 kb on + strand, within HMPREF1058_RS07355at 254.090 kb on - strand, within HMPREF1058_RS07355at 254.221 kb on + strand, within HMPREF1058_RS07355at 254.227 kb on + strand, within HMPREF1058_RS07355at 254.234 kb on + strand, within HMPREF1058_RS07355at 254.234 kb on + strand, within HMPREF1058_RS07355at 254.295 kb on - strand, within HMPREF1058_RS07355at 254.382 kb on + strandat 254.383 kb on - strandat 254.388 kb on + strandat 254.427 kb on - strandat 254.525 kb on - strand, within HMPREF1058_RS07350at 254.525 kb on - strand, within HMPREF1058_RS07350at 254.560 kb on - strand, within HMPREF1058_RS07350at 254.606 kb on + strand, within HMPREF1058_RS07350at 254.624 kb on + strand, within HMPREF1058_RS07350at 254.628 kb on + strand, within HMPREF1058_RS07350at 254.628 kb on + strand, within HMPREF1058_RS07350at 254.738 kb on + strand, within HMPREF1058_RS07350at 254.739 kb on - strand, within HMPREF1058_RS07350at 254.741 kb on - strand, within HMPREF1058_RS07350at 254.794 kb on - strand, within HMPREF1058_RS07350at 254.794 kb on - strand, within HMPREF1058_RS07350at 254.804 kb on + strand, within HMPREF1058_RS07350at 254.805 kb on - strand, within HMPREF1058_RS07350at 254.811 kb on + strand, within HMPREF1058_RS07350at 254.826 kb on + strandat 254.834 kb on + strandat 254.859 kb on - strandat 254.860 kb on + strandat 254.890 kb on - strandat 254.919 kb on - strandat 255.007 kb on + strandat 255.081 kb on + strandat 255.112 kb on + strand, within HMPREF1058_RS07345at 255.156 kb on + strand, within HMPREF1058_RS07345at 255.222 kb on + strand, within HMPREF1058_RS07345at 255.331 kb on + strand, within HMPREF1058_RS07345at 255.331 kb on + strand, within HMPREF1058_RS07345at 255.332 kb on - strand, within HMPREF1058_RS07345at 255.332 kb on - strand, within HMPREF1058_RS07345at 255.332 kb on - strand, within HMPREF1058_RS07345at 255.373 kb on + strand, within HMPREF1058_RS07345

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day6
remove
252,803 - -0.5
252,846 + +0.4
252,892 + HMPREF1058_RS07360 0.10 -1.3
252,912 + HMPREF1058_RS07360 0.12 -2.6
252,916 + HMPREF1058_RS07360 0.13 +2.3
252,917 - HMPREF1058_RS07360 0.13 -2.2
252,966 + HMPREF1058_RS07360 0.18 +0.5
252,967 - HMPREF1058_RS07360 0.18 -0.8
253,001 + HMPREF1058_RS07360 0.22 +0.5
253,001 + HMPREF1058_RS07360 0.22 +0.8
253,002 - HMPREF1058_RS07360 0.22 -0.0
253,002 - HMPREF1058_RS07360 0.22 -0.1
253,004 + HMPREF1058_RS07360 0.22 +0.5
253,004 + HMPREF1058_RS07360 0.22 -0.1
253,005 - HMPREF1058_RS07360 0.22 +0.6
253,152 - HMPREF1058_RS07360 0.38 -0.1
253,202 - HMPREF1058_RS07360 0.44 -0.8
253,204 + HMPREF1058_RS07360 0.44 +0.8
253,205 - HMPREF1058_RS07360 0.44 +1.3
253,213 + HMPREF1058_RS07360 0.45 +2.0
253,214 - HMPREF1058_RS07360 0.45 +2.2
253,214 - HMPREF1058_RS07360 0.45 +2.4
253,277 + HMPREF1058_RS07360 0.52 -3.5
253,307 - HMPREF1058_RS07360 0.55 -1.3
253,307 - HMPREF1058_RS07360 0.55 -1.7
253,308 + HMPREF1058_RS07360 0.55 -2.5
253,311 - HMPREF1058_RS07360 0.55 -1.9
253,316 + HMPREF1058_RS07360 0.56 +0.1
253,384 + HMPREF1058_RS07360 0.63 -0.1
253,387 + HMPREF1058_RS07360 0.64 +2.0
253,435 + HMPREF1058_RS07360 0.69 -0.0
253,436 - HMPREF1058_RS07360 0.69 -0.8
253,674 + +0.5
253,679 - -0.5
253,712 + -2.5
253,713 - +2.1
253,779 + +3.6
253,893 + HMPREF1058_RS07355 0.16 +1.9
253,894 - HMPREF1058_RS07355 0.16 -0.2
253,979 + HMPREF1058_RS07355 0.31 -2.1
253,979 + HMPREF1058_RS07355 0.31 -2.9
253,981 + HMPREF1058_RS07355 0.31 -3.2
254,012 - HMPREF1058_RS07355 0.36 -3.2
254,013 + HMPREF1058_RS07355 0.36 -2.5
254,014 - HMPREF1058_RS07355 0.37 -1.1
254,047 + HMPREF1058_RS07355 0.42 -0.1
254,090 - HMPREF1058_RS07355 0.50 -1.8
254,221 + HMPREF1058_RS07355 0.72 -3.9
254,227 + HMPREF1058_RS07355 0.73 -2.3
254,234 + HMPREF1058_RS07355 0.75 -3.4
254,234 + HMPREF1058_RS07355 0.75 -3.6
254,295 - HMPREF1058_RS07355 0.85 -1.8
254,382 + -3.1
254,383 - +1.3
254,388 + -1.8
254,427 - +0.4
254,525 - HMPREF1058_RS07350 0.28 +0.2
254,525 - HMPREF1058_RS07350 0.28 +1.1
254,560 - HMPREF1058_RS07350 0.35 +1.1
254,606 + HMPREF1058_RS07350 0.45 +0.6
254,624 + HMPREF1058_RS07350 0.49 -1.0
254,628 + HMPREF1058_RS07350 0.50 +3.0
254,628 + HMPREF1058_RS07350 0.50 -0.5
254,738 + HMPREF1058_RS07350 0.73 +0.1
254,739 - HMPREF1058_RS07350 0.73 -2.1
254,741 - HMPREF1058_RS07350 0.73 -0.9
254,794 - HMPREF1058_RS07350 0.85 +1.7
254,794 - HMPREF1058_RS07350 0.85 -2.8
254,804 + HMPREF1058_RS07350 0.87 -1.0
254,805 - HMPREF1058_RS07350 0.87 -3.2
254,811 + HMPREF1058_RS07350 0.88 -1.1
254,826 + -0.4
254,834 + -0.1
254,859 - -3.3
254,860 + +2.1
254,890 - -1.1
254,919 - +1.5
255,007 + +0.9
255,081 + -0.2
255,112 + HMPREF1058_RS07345 0.14 +0.1
255,156 + HMPREF1058_RS07345 0.20 +0.6
255,222 + HMPREF1058_RS07345 0.30 -0.0
255,331 + HMPREF1058_RS07345 0.46 +1.6
255,331 + HMPREF1058_RS07345 0.46 -0.2
255,332 - HMPREF1058_RS07345 0.47 +0.3
255,332 - HMPREF1058_RS07345 0.47 -0.2
255,332 - HMPREF1058_RS07345 0.47 -1.0
255,373 + HMPREF1058_RS07345 0.53 -1.3

Or see this region's nucleotide sequence