Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS18775

Experiment: Beta-Lactose 10 mM (C)

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_RS18780 and HMPREF1058_RS18775 are separated by 283 nucleotidesHMPREF1058_RS18775 and HMPREF1058_RS18770 are separated by 32 nucleotidesHMPREF1058_RS18770 and HMPREF1058_RS20375 are separated by 123 nucleotidesHMPREF1058_RS20375 and HMPREF1058_RS18765 are separated by 31 nucleotides HMPREF1058_RS18780: HMPREF1058_RS18780 - aminomethyl-transferring glycine dehydrogenase, at 71,447 to 74,296 _RS18780 HMPREF1058_RS18775: HMPREF1058_RS18775 - S9 family peptidase, at 74,580 to 77,294 _RS18775 HMPREF1058_RS18770: HMPREF1058_RS18770 - hypothetical protein, at 77,327 to 77,563 _RS18770 HMPREF1058_RS20375: HMPREF1058_RS20375 - hypothetical protein, at 77,687 to 77,914 _RS20375 HMPREF1058_RS18765: HMPREF1058_RS18765 - formate--tetrahydrofolate ligase, at 77,946 to 79,613 _RS18765 Position (kb) 74 75 76 77 78Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 73.712 kb on - strand, within HMPREF1058_RS18780at 73.719 kb on - strand, within HMPREF1058_RS18780at 73.726 kb on + strand, within HMPREF1058_RS18780at 73.726 kb on + strand, within HMPREF1058_RS18780at 73.791 kb on - strandat 73.827 kb on + strand, within HMPREF1058_RS18780at 73.827 kb on + strand, within HMPREF1058_RS18780at 73.827 kb on + strand, within HMPREF1058_RS18780at 73.827 kb on + strand, within HMPREF1058_RS18780at 73.828 kb on - strand, within HMPREF1058_RS18780at 73.828 kb on - strand, within HMPREF1058_RS18780at 73.828 kb on - strand, within HMPREF1058_RS18780at 73.828 kb on - strand, within HMPREF1058_RS18780at 73.828 kb on - strand, within HMPREF1058_RS18780at 73.828 kb on - strand, within HMPREF1058_RS18780at 74.106 kb on + strandat 74.245 kb on + strandat 74.245 kb on + strandat 74.250 kb on + strandat 74.250 kb on + strandat 74.250 kb on + strandat 74.308 kb on - strandat 74.351 kb on - strandat 74.517 kb on + strandat 74.518 kb on - strandat 74.518 kb on - strandat 74.530 kb on + strandat 74.575 kb on + strandat 74.575 kb on + strandat 74.578 kb on + strandat 74.596 kb on + strandat 74.681 kb on + strandat 74.741 kb on - strandat 74.789 kb on - strandat 74.794 kb on - strandat 74.832 kb on - strandat 74.841 kb on + strandat 74.841 kb on + strandat 74.857 kb on - strand, within HMPREF1058_RS18775at 74.985 kb on - strand, within HMPREF1058_RS18775at 75.005 kb on + strand, within HMPREF1058_RS18775at 75.006 kb on - strand, within HMPREF1058_RS18775at 75.089 kb on + strand, within HMPREF1058_RS18775at 75.168 kb on - strand, within HMPREF1058_RS18775at 75.170 kb on - strand, within HMPREF1058_RS18775at 75.195 kb on + strandat 75.204 kb on + strand, within HMPREF1058_RS18775at 75.204 kb on + strand, within HMPREF1058_RS18775at 75.205 kb on - strand, within HMPREF1058_RS18775at 75.242 kb on - strand, within HMPREF1058_RS18775at 75.317 kb on - strand, within HMPREF1058_RS18775at 75.370 kb on + strand, within HMPREF1058_RS18775at 75.440 kb on - strand, within HMPREF1058_RS18775at 75.497 kb on + strand, within HMPREF1058_RS18775at 75.502 kb on + strand, within HMPREF1058_RS18775at 75.503 kb on - strand, within HMPREF1058_RS18775at 75.546 kb on + strand, within HMPREF1058_RS18775at 75.569 kb on + strand, within HMPREF1058_RS18775at 75.588 kb on - strand, within HMPREF1058_RS18775at 75.589 kb on + strand, within HMPREF1058_RS18775at 75.643 kb on + strand, within HMPREF1058_RS18775at 75.733 kb on - strand, within HMPREF1058_RS18775at 75.759 kb on - strand, within HMPREF1058_RS18775at 75.818 kb on + strand, within HMPREF1058_RS18775at 75.837 kb on + strand, within HMPREF1058_RS18775at 75.898 kb on - strand, within HMPREF1058_RS18775at 76.249 kb on - strand, within HMPREF1058_RS18775at 76.295 kb on + strand, within HMPREF1058_RS18775at 76.295 kb on + strand, within HMPREF1058_RS18775at 76.296 kb on - strand, within HMPREF1058_RS18775at 76.297 kb on + strand, within HMPREF1058_RS18775at 76.297 kb on + strand, within HMPREF1058_RS18775at 76.297 kb on + strand, within HMPREF1058_RS18775at 76.298 kb on - strand, within HMPREF1058_RS18775at 76.306 kb on - strand, within HMPREF1058_RS18775at 76.310 kb on + strand, within HMPREF1058_RS18775at 76.313 kb on - strand, within HMPREF1058_RS18775at 76.377 kb on - strand, within HMPREF1058_RS18775at 76.377 kb on - strand, within HMPREF1058_RS18775at 76.644 kb on + strand, within HMPREF1058_RS18775at 76.723 kb on + strand, within HMPREF1058_RS18775at 77.024 kb on - strandat 77.096 kb on - strandat 77.263 kb on - strandat 77.263 kb on - strandat 77.283 kb on + strandat 77.284 kb on - strandat 77.339 kb on - strandat 77.382 kb on - strand, within HMPREF1058_RS18770at 77.506 kb on + strand, within HMPREF1058_RS18770at 77.525 kb on - strand, within HMPREF1058_RS18770at 77.594 kb on - strandat 77.633 kb on + strandat 77.650 kb on - strandat 77.650 kb on - strandat 77.651 kb on + strandat 77.660 kb on + strandat 77.660 kb on + strandat 77.660 kb on + strandat 77.660 kb on + strandat 77.661 kb on - strandat 77.680 kb on - strandat 77.729 kb on - strand, within HMPREF1058_RS20375at 77.730 kb on + strand, within HMPREF1058_RS20375at 77.730 kb on + strand, within HMPREF1058_RS20375at 77.730 kb on + strand, within HMPREF1058_RS20375at 77.802 kb on + strand, within HMPREF1058_RS20375at 77.802 kb on + strand, within HMPREF1058_RS20375at 77.803 kb on - strand, within HMPREF1058_RS20375at 77.807 kb on + strand, within HMPREF1058_RS20375at 77.822 kb on - strand, within HMPREF1058_RS20375at 77.837 kb on - strand, within HMPREF1058_RS20375at 77.962 kb on - strandat 77.985 kb on - strandat 78.189 kb on + strand, within HMPREF1058_RS18765at 78.194 kb on + strand, within HMPREF1058_RS18765at 78.226 kb on + strand, within HMPREF1058_RS18765at 78.226 kb on + strand, within HMPREF1058_RS18765at 78.227 kb on - strand, within HMPREF1058_RS18765at 78.227 kb on - strand, within HMPREF1058_RS18765at 78.230 kb on + strand, within HMPREF1058_RS18765at 78.231 kb on - strand, within HMPREF1058_RS18765at 78.248 kb on - strand, within HMPREF1058_RS18765at 78.255 kb on - strand, within HMPREF1058_RS18765at 78.276 kb on - strand, within HMPREF1058_RS18765

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Beta-Lactose 10 mM (C)
remove
73,712 - HMPREF1058_RS18780 0.79 -0.2
73,719 - HMPREF1058_RS18780 0.80 -0.9
73,726 + HMPREF1058_RS18780 0.80 -1.0
73,726 + HMPREF1058_RS18780 0.80 -0.4
73,791 - -0.6
73,827 + HMPREF1058_RS18780 0.84 -1.2
73,827 + HMPREF1058_RS18780 0.84 +0.2
73,827 + HMPREF1058_RS18780 0.84 +2.4
73,827 + HMPREF1058_RS18780 0.84 -1.8
73,828 - HMPREF1058_RS18780 0.84 -1.1
73,828 - HMPREF1058_RS18780 0.84 -0.6
73,828 - HMPREF1058_RS18780 0.84 -0.5
73,828 - HMPREF1058_RS18780 0.84 -0.9
73,828 - HMPREF1058_RS18780 0.84 -0.7
73,828 - HMPREF1058_RS18780 0.84 -2.8
74,106 + +0.8
74,245 + +0.2
74,245 + +2.1
74,250 + -0.5
74,250 + +0.4
74,250 + +0.1
74,308 - -0.2
74,351 - +0.4
74,517 + +1.7
74,518 - +2.8
74,518 - +1.2
74,530 + +1.4
74,575 + +1.5
74,575 + +1.1
74,578 + +2.0
74,596 + +2.0
74,681 + +3.2
74,741 - +2.4
74,789 - +2.1
74,794 - +3.0
74,832 - +2.9
74,841 + +1.9
74,841 + +2.5
74,857 - HMPREF1058_RS18775 0.10 +3.3
74,985 - HMPREF1058_RS18775 0.15 +2.5
75,005 + HMPREF1058_RS18775 0.16 +4.0
75,006 - HMPREF1058_RS18775 0.16 +2.8
75,089 + HMPREF1058_RS18775 0.19 +2.3
75,168 - HMPREF1058_RS18775 0.22 +1.8
75,170 - HMPREF1058_RS18775 0.22 +2.8
75,195 + +0.4
75,204 + HMPREF1058_RS18775 0.23 +2.9
75,204 + HMPREF1058_RS18775 0.23 +2.4
75,205 - HMPREF1058_RS18775 0.23 +2.9
75,242 - HMPREF1058_RS18775 0.24 +2.0
75,317 - HMPREF1058_RS18775 0.27 +3.1
75,370 + HMPREF1058_RS18775 0.29 +3.6
75,440 - HMPREF1058_RS18775 0.32 +2.8
75,497 + HMPREF1058_RS18775 0.34 +2.2
75,502 + HMPREF1058_RS18775 0.34 +1.9
75,503 - HMPREF1058_RS18775 0.34 +1.9
75,546 + HMPREF1058_RS18775 0.36 +0.9
75,569 + HMPREF1058_RS18775 0.36 +1.9
75,588 - HMPREF1058_RS18775 0.37 +2.9
75,589 + HMPREF1058_RS18775 0.37 +0.9
75,643 + HMPREF1058_RS18775 0.39 +2.4
75,733 - HMPREF1058_RS18775 0.42 +2.5
75,759 - HMPREF1058_RS18775 0.43 +1.9
75,818 + HMPREF1058_RS18775 0.46 +1.7
75,837 + HMPREF1058_RS18775 0.46 +1.8
75,898 - HMPREF1058_RS18775 0.49 +3.2
76,249 - HMPREF1058_RS18775 0.61 +1.9
76,295 + HMPREF1058_RS18775 0.63 -0.2
76,295 + HMPREF1058_RS18775 0.63 +2.1
76,296 - HMPREF1058_RS18775 0.63 +2.1
76,297 + HMPREF1058_RS18775 0.63 +2.7
76,297 + HMPREF1058_RS18775 0.63 +3.1
76,297 + HMPREF1058_RS18775 0.63 +2.3
76,298 - HMPREF1058_RS18775 0.63 +2.6
76,306 - HMPREF1058_RS18775 0.64 +2.2
76,310 + HMPREF1058_RS18775 0.64 +2.7
76,313 - HMPREF1058_RS18775 0.64 +2.3
76,377 - HMPREF1058_RS18775 0.66 +2.1
76,377 - HMPREF1058_RS18775 0.66 +1.5
76,644 + HMPREF1058_RS18775 0.76 +2.9
76,723 + HMPREF1058_RS18775 0.79 +2.0
77,024 - +1.4
77,096 - +2.1
77,263 - +2.6
77,263 - +2.4
77,283 + +1.7
77,284 - +2.2
77,339 - +1.4
77,382 - HMPREF1058_RS18770 0.23 -0.9
77,506 + HMPREF1058_RS18770 0.76 +1.6
77,525 - HMPREF1058_RS18770 0.84 +1.4
77,594 - -1.7
77,633 + -0.6
77,650 - -4.2
77,650 - -0.8
77,651 + +0.6
77,660 + +0.9
77,660 + +0.9
77,660 + +0.0
77,660 + +0.7
77,661 - -1.7
77,680 - -2.8
77,729 - HMPREF1058_RS20375 0.18 -0.6
77,730 + HMPREF1058_RS20375 0.19 +0.8
77,730 + HMPREF1058_RS20375 0.19 +0.2
77,730 + HMPREF1058_RS20375 0.19 +2.4
77,802 + HMPREF1058_RS20375 0.50 -0.1
77,802 + HMPREF1058_RS20375 0.50 -1.8
77,803 - HMPREF1058_RS20375 0.51 -0.6
77,807 + HMPREF1058_RS20375 0.53 +0.6
77,822 - HMPREF1058_RS20375 0.59 -1.6
77,837 - HMPREF1058_RS20375 0.66 -2.5
77,962 - -3.5
77,985 - -4.2
78,189 + HMPREF1058_RS18765 0.15 +0.8
78,194 + HMPREF1058_RS18765 0.15 -2.9
78,226 + HMPREF1058_RS18765 0.17 +0.3
78,226 + HMPREF1058_RS18765 0.17 -0.4
78,227 - HMPREF1058_RS18765 0.17 +1.4
78,227 - HMPREF1058_RS18765 0.17 -2.5
78,230 + HMPREF1058_RS18765 0.17 +0.5
78,231 - HMPREF1058_RS18765 0.17 -1.0
78,248 - HMPREF1058_RS18765 0.18 -0.9
78,255 - HMPREF1058_RS18765 0.19 -0.1
78,276 - HMPREF1058_RS18765 0.20 -0.8

Or see this region's nucleotide sequence