Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS15285

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse11; day3

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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_RS15290 and HMPREF1058_RS15285 are separated by 7 nucleotidesHMPREF1058_RS15285 and HMPREF1058_RS15280 are separated by 231 nucleotidesHMPREF1058_RS15280 and HMPREF1058_RS15275 are separated by 87 nucleotides HMPREF1058_RS15290: HMPREF1058_RS15290 - hypothetical protein, at 959,267 to 960,478 _RS15290 HMPREF1058_RS15285: HMPREF1058_RS15285 - hypothetical protein, at 960,486 to 960,938 _RS15285 HMPREF1058_RS15280: HMPREF1058_RS15280 - tRNA-Ser, at 961,170 to 961,257 _RS15280 HMPREF1058_RS15275: HMPREF1058_RS15275 - NADPH-dependent 7-cyano-7-deazaguanine reductase QueF, at 961,345 to 961,800 _RS15275 Position (kb) 960 961Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 959.503 kb on + strand, within HMPREF1058_RS15290at 959.507 kb on + strand, within HMPREF1058_RS15290at 959.508 kb on - strand, within HMPREF1058_RS15290at 959.508 kb on - strand, within HMPREF1058_RS15290at 959.594 kb on + strand, within HMPREF1058_RS15290at 959.642 kb on - strand, within HMPREF1058_RS15290at 959.642 kb on - strand, within HMPREF1058_RS15290at 959.642 kb on - strand, within HMPREF1058_RS15290at 959.642 kb on - strand, within HMPREF1058_RS15290at 959.674 kb on + strand, within HMPREF1058_RS15290at 959.817 kb on + strand, within HMPREF1058_RS15290at 959.830 kb on + strand, within HMPREF1058_RS15290at 959.862 kb on - strand, within HMPREF1058_RS15290at 959.865 kb on - strand, within HMPREF1058_RS15290at 959.872 kb on + strand, within HMPREF1058_RS15290at 960.038 kb on + strand, within HMPREF1058_RS15290at 960.056 kb on - strand, within HMPREF1058_RS15290at 960.066 kb on - strand, within HMPREF1058_RS15290at 960.068 kb on - strand, within HMPREF1058_RS15290at 960.134 kb on + strand, within HMPREF1058_RS15290at 960.212 kb on - strand, within HMPREF1058_RS15290at 960.220 kb on - strand, within HMPREF1058_RS15290at 960.226 kb on + strand, within HMPREF1058_RS15290at 960.397 kb on + strandat 960.398 kb on - strandat 960.452 kb on + strandat 960.486 kb on - strandat 960.497 kb on - strandat 960.589 kb on - strand, within HMPREF1058_RS15285at 960.595 kb on - strand, within HMPREF1058_RS15285at 960.626 kb on + strand, within HMPREF1058_RS15285at 960.626 kb on + strand, within HMPREF1058_RS15285at 960.690 kb on - strand, within HMPREF1058_RS15285at 960.690 kb on - strand, within HMPREF1058_RS15285at 960.704 kb on + strand, within HMPREF1058_RS15285at 960.705 kb on - strand, within HMPREF1058_RS15285at 960.705 kb on - strand, within HMPREF1058_RS15285at 960.710 kb on + strand, within HMPREF1058_RS15285at 960.728 kb on + strand, within HMPREF1058_RS15285at 960.749 kb on + strand, within HMPREF1058_RS15285at 960.794 kb on - strand, within HMPREF1058_RS15285at 960.800 kb on - strand, within HMPREF1058_RS15285at 960.808 kb on + strand, within HMPREF1058_RS15285at 960.814 kb on - strand, within HMPREF1058_RS15285at 960.853 kb on - strand, within HMPREF1058_RS15285at 960.899 kb on - strandat 960.939 kb on + strandat 960.940 kb on - strandat 960.970 kb on - strandat 960.970 kb on - strandat 960.974 kb on - strandat 960.988 kb on + strandat 960.989 kb on - strandat 960.990 kb on + strandat 960.991 kb on - strandat 961.009 kb on - strandat 961.023 kb on + strandat 961.026 kb on + strandat 961.028 kb on - strandat 961.033 kb on + strandat 961.034 kb on - strandat 961.036 kb on + strandat 961.056 kb on + strandat 961.057 kb on - strandat 961.088 kb on - strandat 961.109 kb on - strandat 961.109 kb on - strandat 961.144 kb on + strandat 961.149 kb on - strandat 961.213 kb on - strand, within HMPREF1058_RS15280at 961.213 kb on - strand, within HMPREF1058_RS15280at 961.340 kb on + strandat 961.341 kb on - strandat 961.346 kb on + strandat 961.359 kb on + strandat 961.392 kb on + strand, within HMPREF1058_RS15275at 961.393 kb on - strand, within HMPREF1058_RS15275at 961.413 kb on + strand, within HMPREF1058_RS15275at 961.414 kb on - strand, within HMPREF1058_RS15275at 961.472 kb on + strand, within HMPREF1058_RS15275at 961.473 kb on - strand, within HMPREF1058_RS15275at 961.554 kb on + strand, within HMPREF1058_RS15275at 961.555 kb on - strand, within HMPREF1058_RS15275at 961.562 kb on + strand, within HMPREF1058_RS15275at 961.644 kb on + strand, within HMPREF1058_RS15275at 961.677 kb on + strand, within HMPREF1058_RS15275at 961.907 kb on + strandat 961.908 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse11; day3
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959,503 + HMPREF1058_RS15290 0.19 +2.4
959,507 + HMPREF1058_RS15290 0.20 +0.5
959,508 - HMPREF1058_RS15290 0.20 +1.4
959,508 - HMPREF1058_RS15290 0.20 +0.1
959,594 + HMPREF1058_RS15290 0.27 +0.2
959,642 - HMPREF1058_RS15290 0.31 -0.8
959,642 - HMPREF1058_RS15290 0.31 +3.0
959,642 - HMPREF1058_RS15290 0.31 -0.8
959,642 - HMPREF1058_RS15290 0.31 +1.1
959,674 + HMPREF1058_RS15290 0.34 -0.3
959,817 + HMPREF1058_RS15290 0.45 +3.8
959,830 + HMPREF1058_RS15290 0.46 +0.3
959,862 - HMPREF1058_RS15290 0.49 +0.3
959,865 - HMPREF1058_RS15290 0.49 +1.7
959,872 + HMPREF1058_RS15290 0.50 +0.5
960,038 + HMPREF1058_RS15290 0.64 -2.5
960,056 - HMPREF1058_RS15290 0.65 +0.7
960,066 - HMPREF1058_RS15290 0.66 -2.7
960,068 - HMPREF1058_RS15290 0.66 -0.9
960,134 + HMPREF1058_RS15290 0.72 -0.5
960,212 - HMPREF1058_RS15290 0.78 -0.1
960,220 - HMPREF1058_RS15290 0.79 +1.7
960,226 + HMPREF1058_RS15290 0.79 -2.5
960,397 + +1.1
960,398 - +2.3
960,452 + -0.8
960,486 - -0.7
960,497 - +0.1
960,589 - HMPREF1058_RS15285 0.23 +0.9
960,595 - HMPREF1058_RS15285 0.24 -0.2
960,626 + HMPREF1058_RS15285 0.31 +0.1
960,626 + HMPREF1058_RS15285 0.31 +0.7
960,690 - HMPREF1058_RS15285 0.45 +0.6
960,690 - HMPREF1058_RS15285 0.45 -0.9
960,704 + HMPREF1058_RS15285 0.48 +0.9
960,705 - HMPREF1058_RS15285 0.48 -2.7
960,705 - HMPREF1058_RS15285 0.48 +0.4
960,710 + HMPREF1058_RS15285 0.49 -0.7
960,728 + HMPREF1058_RS15285 0.53 +1.1
960,749 + HMPREF1058_RS15285 0.58 -0.3
960,794 - HMPREF1058_RS15285 0.68 -0.2
960,800 - HMPREF1058_RS15285 0.69 +3.8
960,808 + HMPREF1058_RS15285 0.71 +0.9
960,814 - HMPREF1058_RS15285 0.72 +1.7
960,853 - HMPREF1058_RS15285 0.81 -0.3
960,899 - -0.5
960,939 + -0.3
960,940 - +4.3
960,970 - -1.1
960,970 - +1.5
960,974 - -1.1
960,988 + +2.4
960,989 - +0.4
960,990 + +0.6
960,991 - -2.2
961,009 - +0.5
961,023 + +0.2
961,026 + +1.5
961,028 - +0.3
961,033 + -0.9
961,034 - -1.9
961,036 + -0.3
961,056 + +0.1
961,057 - +0.9
961,088 - +1.7
961,109 - +0.1
961,109 - +0.9
961,144 + +2.9
961,149 - -1.9
961,213 - HMPREF1058_RS15280 0.49 +1.4
961,213 - HMPREF1058_RS15280 0.49 +1.7
961,340 + -0.9
961,341 - -2.9
961,346 + +0.7
961,359 + +0.1
961,392 + HMPREF1058_RS15275 0.10 -0.8
961,393 - HMPREF1058_RS15275 0.11 +2.1
961,413 + HMPREF1058_RS15275 0.15 -0.5
961,414 - HMPREF1058_RS15275 0.15 -0.1
961,472 + HMPREF1058_RS15275 0.28 +0.4
961,473 - HMPREF1058_RS15275 0.28 -1.9
961,554 + HMPREF1058_RS15275 0.46 -0.1
961,555 - HMPREF1058_RS15275 0.46 -1.2
961,562 + HMPREF1058_RS15275 0.48 -1.5
961,644 + HMPREF1058_RS15275 0.66 +1.7
961,677 + HMPREF1058_RS15275 0.73 -1.9
961,907 + -0.9
961,908 - -2.7

Or see this region's nucleotide sequence