Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01435

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3

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_RS0120085 and HMPREF1058_RS01435 are separated by 67 nucleotidesHMPREF1058_RS01435 and HMPREF1058_RS01430 overlap by 17 nucleotidesHMPREF1058_RS01430 and HMPREF1058_RS01425 are separated by 49 nucleotides HMPREF1058_RS0120085: HMPREF1058_RS0120085 - IS1182 family transposase, at 124,923 to 126,578 _RS0120085 HMPREF1058_RS01435: HMPREF1058_RS01435 - anaerobic ribonucleoside-triphosphate reductase, at 126,646 to 128,208 _RS01435 HMPREF1058_RS01430: HMPREF1058_RS01430 - anaerobic ribonucleoside-triphosphate reductase activating protein, at 128,192 to 128,659 _RS01430 HMPREF1058_RS01425: HMPREF1058_RS01425 - sirohydrochlorin cobaltochelatase, at 128,709 to 129,905 _RS01425 Position (kb) 126 127 128 129Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 126.661 kb on + strandat 126.682 kb on + strandat 126.682 kb on + strandat 126.682 kb on + strandat 126.780 kb on + strandat 126.785 kb on + strandat 126.793 kb on - strandat 126.797 kb on + strandat 126.797 kb on + strandat 126.832 kb on + strand, within HMPREF1058_RS01435at 126.832 kb on + strand, within HMPREF1058_RS01435at 126.876 kb on + strand, within HMPREF1058_RS01435at 126.876 kb on + strand, within HMPREF1058_RS01435at 126.876 kb on + strand, within HMPREF1058_RS01435at 126.877 kb on - strand, within HMPREF1058_RS01435at 126.877 kb on - strand, within HMPREF1058_RS01435at 126.907 kb on - strand, within HMPREF1058_RS01435at 126.961 kb on + strand, within HMPREF1058_RS01435at 126.966 kb on + strand, within HMPREF1058_RS01435at 127.022 kb on - strand, within HMPREF1058_RS01435at 127.025 kb on - strand, within HMPREF1058_RS01435at 127.208 kb on + strand, within HMPREF1058_RS01435at 127.209 kb on - strand, within HMPREF1058_RS01435at 127.273 kb on + strand, within HMPREF1058_RS01435at 127.274 kb on - strand, within HMPREF1058_RS01435at 127.274 kb on - strand, within HMPREF1058_RS01435at 127.276 kb on - strand, within HMPREF1058_RS01435at 127.276 kb on - strandat 127.276 kb on - strand, within HMPREF1058_RS01435at 127.350 kb on + strand, within HMPREF1058_RS01435at 127.587 kb on - strand, within HMPREF1058_RS01435at 127.591 kb on - strand, within HMPREF1058_RS01435at 127.658 kb on - strand, within HMPREF1058_RS01435at 127.682 kb on + strand, within HMPREF1058_RS01435at 127.701 kb on + strand, within HMPREF1058_RS01435at 127.702 kb on - strand, within HMPREF1058_RS01435at 127.716 kb on + strand, within HMPREF1058_RS01435at 127.763 kb on + strand, within HMPREF1058_RS01435at 127.822 kb on + strand, within HMPREF1058_RS01435at 127.832 kb on - strand, within HMPREF1058_RS01435at 127.845 kb on - strand, within HMPREF1058_RS01435at 127.899 kb on + strand, within HMPREF1058_RS01435at 127.900 kb on - strand, within HMPREF1058_RS01435at 127.954 kb on - strand, within HMPREF1058_RS01435at 127.994 kb on + strand, within HMPREF1058_RS01435at 128.009 kb on - strand, within HMPREF1058_RS01435at 128.049 kb on + strandat 128.050 kb on - strand, within HMPREF1058_RS01435at 128.056 kb on - strandat 128.201 kb on + strandat 128.266 kb on + strand, within HMPREF1058_RS01430at 128.359 kb on - strand, within HMPREF1058_RS01430at 128.552 kb on + strand, within HMPREF1058_RS01430at 128.552 kb on + strand, within HMPREF1058_RS01430at 128.553 kb on - strand, within HMPREF1058_RS01430at 128.553 kb on - strand, within HMPREF1058_RS01430at 128.553 kb on - strand, within HMPREF1058_RS01430at 128.632 kb on + strandat 128.653 kb on + strandat 128.672 kb on + strandat 128.693 kb on - strandat 128.697 kb on - strandat 128.772 kb on + strandat 128.773 kb on - strandat 128.829 kb on - strand, within HMPREF1058_RS01425at 128.907 kb on + strand, within HMPREF1058_RS01425at 128.933 kb on + strand, within HMPREF1058_RS01425at 128.934 kb on - strand, within HMPREF1058_RS01425at 128.935 kb on + strand, within HMPREF1058_RS01425at 128.961 kb on - strand, within HMPREF1058_RS01425at 129.049 kb on + strand, within HMPREF1058_RS01425at 129.091 kb on + strand, within HMPREF1058_RS01425at 129.092 kb on - strand, within HMPREF1058_RS01425at 129.104 kb on + strand, within HMPREF1058_RS01425at 129.113 kb on + strand, within HMPREF1058_RS01425at 129.114 kb on - strand, within HMPREF1058_RS01425at 129.114 kb on - strand, within HMPREF1058_RS01425at 129.114 kb on - strandat 129.148 kb on - strand, within HMPREF1058_RS01425at 129.158 kb on + strand, within HMPREF1058_RS01425

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
remove
126,661 + +1.1
126,682 + +0.5
126,682 + -0.4
126,682 + +0.3
126,780 + -0.0
126,785 + -0.2
126,793 - -0.7
126,797 + -1.8
126,797 + +0.3
126,832 + HMPREF1058_RS01435 0.12 +0.0
126,832 + HMPREF1058_RS01435 0.12 -0.9
126,876 + HMPREF1058_RS01435 0.15 -0.4
126,876 + HMPREF1058_RS01435 0.15 -0.5
126,876 + HMPREF1058_RS01435 0.15 +1.0
126,877 - HMPREF1058_RS01435 0.15 +0.7
126,877 - HMPREF1058_RS01435 0.15 +0.0
126,907 - HMPREF1058_RS01435 0.17 +1.2
126,961 + HMPREF1058_RS01435 0.20 -0.3
126,966 + HMPREF1058_RS01435 0.20 +2.2
127,022 - HMPREF1058_RS01435 0.24 +0.7
127,025 - HMPREF1058_RS01435 0.24 +1.9
127,208 + HMPREF1058_RS01435 0.36 +0.8
127,209 - HMPREF1058_RS01435 0.36 -0.1
127,273 + HMPREF1058_RS01435 0.40 +1.2
127,274 - HMPREF1058_RS01435 0.40 +0.4
127,274 - HMPREF1058_RS01435 0.40 -1.3
127,276 - HMPREF1058_RS01435 0.40 +0.1
127,276 - -0.7
127,276 - HMPREF1058_RS01435 0.40 -0.3
127,350 + HMPREF1058_RS01435 0.45 +0.1
127,587 - HMPREF1058_RS01435 0.60 +0.7
127,591 - HMPREF1058_RS01435 0.60 +0.4
127,658 - HMPREF1058_RS01435 0.65 -1.9
127,682 + HMPREF1058_RS01435 0.66 +0.3
127,701 + HMPREF1058_RS01435 0.67 +1.7
127,702 - HMPREF1058_RS01435 0.68 -0.2
127,716 + HMPREF1058_RS01435 0.68 -0.2
127,763 + HMPREF1058_RS01435 0.71 +0.3
127,822 + HMPREF1058_RS01435 0.75 +1.3
127,832 - HMPREF1058_RS01435 0.76 -0.7
127,845 - HMPREF1058_RS01435 0.77 -1.1
127,899 + HMPREF1058_RS01435 0.80 +0.2
127,900 - HMPREF1058_RS01435 0.80 -0.1
127,954 - HMPREF1058_RS01435 0.84 +1.4
127,994 + HMPREF1058_RS01435 0.86 +0.2
128,009 - HMPREF1058_RS01435 0.87 +0.8
128,049 + +0.3
128,050 - HMPREF1058_RS01435 0.90 +0.4
128,056 - +1.2
128,201 + +0.3
128,266 + HMPREF1058_RS01430 0.16 -0.5
128,359 - HMPREF1058_RS01430 0.36 -2.0
128,552 + HMPREF1058_RS01430 0.77 -2.3
128,552 + HMPREF1058_RS01430 0.77 -0.8
128,553 - HMPREF1058_RS01430 0.77 -1.8
128,553 - HMPREF1058_RS01430 0.77 +0.2
128,553 - HMPREF1058_RS01430 0.77 -0.2
128,632 + -0.0
128,653 + +0.3
128,672 + -0.3
128,693 - -0.6
128,697 - +0.2
128,772 + +0.7
128,773 - -0.1
128,829 - HMPREF1058_RS01425 0.10 +0.6
128,907 + HMPREF1058_RS01425 0.17 +0.4
128,933 + HMPREF1058_RS01425 0.19 -0.1
128,934 - HMPREF1058_RS01425 0.19 +0.1
128,935 + HMPREF1058_RS01425 0.19 +2.1
128,961 - HMPREF1058_RS01425 0.21 -2.8
129,049 + HMPREF1058_RS01425 0.28 +0.3
129,091 + HMPREF1058_RS01425 0.32 +0.5
129,092 - HMPREF1058_RS01425 0.32 +2.9
129,104 + HMPREF1058_RS01425 0.33 +1.2
129,113 + HMPREF1058_RS01425 0.34 -0.3
129,114 - HMPREF1058_RS01425 0.34 +0.6
129,114 - HMPREF1058_RS01425 0.34 +0.5
129,114 - +0.9
129,148 - HMPREF1058_RS01425 0.37 +0.4
129,158 + HMPREF1058_RS01425 0.38 +0.3

Or see this region's nucleotide sequence