Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS08860

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4

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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.

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500 ntHMPREF1058_RS08865 and HMPREF1058_RS08860 are separated by 39 nucleotidesHMPREF1058_RS08860 and HMPREF1058_RS08855 are separated by 306 nucleotidesHMPREF1058_RS08855 and HMPREF1058_RS08850 are separated by 22 nucleotides HMPREF1058_RS08865: HMPREF1058_RS08865 - L-rhamnose isomerase, at 1,011,051 to 1,012,307 _RS08865 HMPREF1058_RS08860: HMPREF1058_RS08860 - rhamnulokinase, at 1,012,347 to 1,013,825 _RS08860 HMPREF1058_RS08855: HMPREF1058_RS08855 - arginine repressor, at 1,014,132 to 1,014,608 _RS08855 HMPREF1058_RS08850: HMPREF1058_RS08850 - N-acetyltransferase, at 1,014,631 to 1,015,188 _RS08850 Position (kb) 1012 1013 1014Strain fitness (log2 ratio) -7 -6 -5 -4 -3 -2 -1 0 1 2at 1011.414 kb on + strand, within HMPREF1058_RS08865at 1011.414 kb on + strand, within HMPREF1058_RS08865at 1011.473 kb on - strand, within HMPREF1058_RS08865at 1011.592 kb on - strand, within HMPREF1058_RS08865at 1011.598 kb on + strand, within HMPREF1058_RS08865at 1011.654 kb on - strand, within HMPREF1058_RS08865at 1011.654 kb on - strand, within HMPREF1058_RS08865at 1011.655 kb on + strand, within HMPREF1058_RS08865at 1012.044 kb on + strand, within HMPREF1058_RS08865at 1012.044 kb on + strand, within HMPREF1058_RS08865at 1012.045 kb on - strand, within HMPREF1058_RS08865at 1012.046 kb on + strand, within HMPREF1058_RS08865at 1012.046 kb on + strand, within HMPREF1058_RS08865at 1012.047 kb on - strand, within HMPREF1058_RS08865at 1012.048 kb on + strand, within HMPREF1058_RS08865at 1012.048 kb on + strand, within HMPREF1058_RS08865at 1012.049 kb on - strand, within HMPREF1058_RS08865at 1012.049 kb on - strand, within HMPREF1058_RS08865at 1012.049 kb on - strand, within HMPREF1058_RS08865at 1012.049 kb on - strand, within HMPREF1058_RS08865at 1012.113 kb on - strand, within HMPREF1058_RS08865at 1012.286 kb on + strandat 1012.311 kb on - strandat 1012.346 kb on - strandat 1012.353 kb on - strandat 1012.382 kb on + strandat 1012.383 kb on - strandat 1012.449 kb on + strandat 1012.461 kb on - strandat 1012.551 kb on + strand, within HMPREF1058_RS08860at 1012.655 kb on - strand, within HMPREF1058_RS08860at 1012.728 kb on + strand, within HMPREF1058_RS08860at 1013.001 kb on + strand, within HMPREF1058_RS08860at 1013.002 kb on - strand, within HMPREF1058_RS08860at 1013.004 kb on - strand, within HMPREF1058_RS08860at 1013.334 kb on - strand, within HMPREF1058_RS08860at 1013.354 kb on + strand, within HMPREF1058_RS08860at 1013.367 kb on - strand, within HMPREF1058_RS08860at 1013.463 kb on + strand, within HMPREF1058_RS08860at 1013.481 kb on - strand, within HMPREF1058_RS08860at 1013.486 kb on + strand, within HMPREF1058_RS08860at 1013.533 kb on + strand, within HMPREF1058_RS08860at 1013.548 kb on - strand, within HMPREF1058_RS08860at 1013.617 kb on - strand, within HMPREF1058_RS08860at 1013.652 kb on - strand, within HMPREF1058_RS08860at 1013.662 kb on + strand, within HMPREF1058_RS08860at 1013.662 kb on + strand, within HMPREF1058_RS08860at 1013.703 kb on + strandat 1013.708 kb on + strandat 1013.766 kb on + strandat 1013.766 kb on + strandat 1013.766 kb on + strandat 1013.767 kb on - strandat 1013.775 kb on - strandat 1013.812 kb on + strandat 1013.851 kb on + strandat 1013.907 kb on + strandat 1013.908 kb on - strandat 1013.909 kb on + strandat 1013.928 kb on + strandat 1013.928 kb on + strandat 1013.944 kb on + strandat 1013.961 kb on + strandat 1014.079 kb on + strandat 1014.080 kb on - strandat 1014.080 kb on - strandat 1014.081 kb on + strandat 1014.191 kb on - strand, within HMPREF1058_RS08855at 1014.252 kb on - strand, within HMPREF1058_RS08855at 1014.317 kb on - strand, within HMPREF1058_RS08855at 1014.318 kb on + strand, within HMPREF1058_RS08855at 1014.318 kb on + strand, within HMPREF1058_RS08855at 1014.318 kb on + strand, within HMPREF1058_RS08855at 1014.319 kb on - strand, within HMPREF1058_RS08855at 1014.323 kb on - strand, within HMPREF1058_RS08855at 1014.323 kb on - strand, within HMPREF1058_RS08855at 1014.335 kb on + strand, within HMPREF1058_RS08855at 1014.343 kb on - strand, within HMPREF1058_RS08855at 1014.343 kb on - strand, within HMPREF1058_RS08855at 1014.343 kb on - strand, within HMPREF1058_RS08855at 1014.431 kb on - strand, within HMPREF1058_RS08855at 1014.468 kb on + strand, within HMPREF1058_RS08855at 1014.510 kb on - strand, within HMPREF1058_RS08855at 1014.510 kb on - strand, within HMPREF1058_RS08855at 1014.527 kb on + strand, within HMPREF1058_RS08855at 1014.528 kb on - strand, within HMPREF1058_RS08855at 1014.528 kb on - strand, within HMPREF1058_RS08855at 1014.593 kb on - strandat 1014.602 kb on - strandat 1014.606 kb on + strandat 1014.612 kb on - strandat 1014.616 kb on + strandat 1014.616 kb on + strandat 1014.617 kb on - strandat 1014.702 kb on + strand, within HMPREF1058_RS08850at 1014.703 kb on - strand, within HMPREF1058_RS08850at 1014.761 kb on - strand, within HMPREF1058_RS08850

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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1,011,414 + HMPREF1058_RS08865 0.29 +1.1
1,011,414 + HMPREF1058_RS08865 0.29 +0.5
1,011,473 - HMPREF1058_RS08865 0.34 -0.1
1,011,592 - HMPREF1058_RS08865 0.43 -1.8
1,011,598 + HMPREF1058_RS08865 0.44 -1.3
1,011,654 - HMPREF1058_RS08865 0.48 +0.7
1,011,654 - HMPREF1058_RS08865 0.48 -0.4
1,011,655 + HMPREF1058_RS08865 0.48 +0.3
1,012,044 + HMPREF1058_RS08865 0.79 -0.4
1,012,044 + HMPREF1058_RS08865 0.79 -0.5
1,012,045 - HMPREF1058_RS08865 0.79 -0.8
1,012,046 + HMPREF1058_RS08865 0.79 +1.1
1,012,046 + HMPREF1058_RS08865 0.79 -1.3
1,012,047 - HMPREF1058_RS08865 0.79 -0.6
1,012,048 + HMPREF1058_RS08865 0.79 +0.3
1,012,048 + HMPREF1058_RS08865 0.79 -2.0
1,012,049 - HMPREF1058_RS08865 0.79 -1.1
1,012,049 - HMPREF1058_RS08865 0.79 +0.3
1,012,049 - HMPREF1058_RS08865 0.79 -1.8
1,012,049 - HMPREF1058_RS08865 0.79 -0.7
1,012,113 - HMPREF1058_RS08865 0.84 -0.4
1,012,286 + +1.5
1,012,311 - +1.5
1,012,346 - +1.8
1,012,353 - -1.1
1,012,382 + -2.0
1,012,383 - +2.5
1,012,449 + -1.8
1,012,461 - +0.3
1,012,551 + HMPREF1058_RS08860 0.14 -0.9
1,012,655 - HMPREF1058_RS08860 0.21 -1.3
1,012,728 + HMPREF1058_RS08860 0.26 -2.4
1,013,001 + HMPREF1058_RS08860 0.44 -0.3
1,013,002 - HMPREF1058_RS08860 0.44 +1.1
1,013,004 - HMPREF1058_RS08860 0.44 -0.1
1,013,334 - HMPREF1058_RS08860 0.67 +0.0
1,013,354 + HMPREF1058_RS08860 0.68 -0.5
1,013,367 - HMPREF1058_RS08860 0.69 -0.6
1,013,463 + HMPREF1058_RS08860 0.75 -1.3
1,013,481 - HMPREF1058_RS08860 0.77 -0.5
1,013,486 + HMPREF1058_RS08860 0.77 -1.0
1,013,533 + HMPREF1058_RS08860 0.80 +0.4
1,013,548 - HMPREF1058_RS08860 0.81 -1.8
1,013,617 - HMPREF1058_RS08860 0.86 -2.1
1,013,652 - HMPREF1058_RS08860 0.88 -2.3
1,013,662 + HMPREF1058_RS08860 0.89 +0.7
1,013,662 + HMPREF1058_RS08860 0.89 -2.4
1,013,703 + -0.3
1,013,708 + -0.3
1,013,766 + -1.7
1,013,766 + -0.7
1,013,766 + -0.8
1,013,767 - -1.8
1,013,775 - -0.4
1,013,812 + -0.7
1,013,851 + -1.5
1,013,907 + -4.4
1,013,908 - -1.0
1,013,909 + -1.3
1,013,928 + -0.7
1,013,928 + +1.2
1,013,944 + +0.9
1,013,961 + -3.6
1,014,079 + -0.5
1,014,080 - -3.1
1,014,080 - -4.7
1,014,081 + +1.5
1,014,191 - HMPREF1058_RS08855 0.12 -4.1
1,014,252 - HMPREF1058_RS08855 0.25 -1.8
1,014,317 - HMPREF1058_RS08855 0.39 -5.3
1,014,318 + HMPREF1058_RS08855 0.39 -0.3
1,014,318 + HMPREF1058_RS08855 0.39 -0.5
1,014,318 + HMPREF1058_RS08855 0.39 -1.3
1,014,319 - HMPREF1058_RS08855 0.39 -2.3
1,014,323 - HMPREF1058_RS08855 0.40 -5.1
1,014,323 - HMPREF1058_RS08855 0.40 -5.5
1,014,335 + HMPREF1058_RS08855 0.43 -0.7
1,014,343 - HMPREF1058_RS08855 0.44 -6.1
1,014,343 - HMPREF1058_RS08855 0.44 -4.1
1,014,343 - HMPREF1058_RS08855 0.44 -2.6
1,014,431 - HMPREF1058_RS08855 0.63 -4.7
1,014,468 + HMPREF1058_RS08855 0.70 -0.7
1,014,510 - HMPREF1058_RS08855 0.79 -6.8
1,014,510 - HMPREF1058_RS08855 0.79 -5.6
1,014,527 + HMPREF1058_RS08855 0.83 +0.7
1,014,528 - HMPREF1058_RS08855 0.83 -4.2
1,014,528 - HMPREF1058_RS08855 0.83 -3.1
1,014,593 - -3.3
1,014,602 - -0.8
1,014,606 + -3.8
1,014,612 - -4.9
1,014,616 + -0.3
1,014,616 + -0.3
1,014,617 - -1.8
1,014,702 + HMPREF1058_RS08850 0.13 -3.0
1,014,703 - HMPREF1058_RS08850 0.13 -3.1
1,014,761 - HMPREF1058_RS08850 0.23 -5.6

Or see this region's nucleotide sequence