Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS14030

Experiment: Arabinoxylan (Rye Flour) 2.5 mg/ml (C)

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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_RS14040 and HMPREF1058_RS14035 are separated by 97 nucleotidesHMPREF1058_RS14035 and HMPREF1058_RS14030 are separated by 2 nucleotidesHMPREF1058_RS14030 and HMPREF1058_RS14025 overlap by 10 nucleotidesHMPREF1058_RS14025 and HMPREF1058_RS14020 overlap by 32 nucleotides HMPREF1058_RS14040: HMPREF1058_RS14040 - AAA family ATPase, at 1,301,619 to 1,303,037 _RS14040 HMPREF1058_RS14035: HMPREF1058_RS14035 - hypothetical protein, at 1,303,135 to 1,303,821 _RS14035 HMPREF1058_RS14030: HMPREF1058_RS14030 - DUF3822 family protein, at 1,303,824 to 1,304,648 _RS14030 HMPREF1058_RS14025: HMPREF1058_RS14025 - RsmD family RNA methyltransferase, at 1,304,639 to 1,305,199 _RS14025 HMPREF1058_RS14020: HMPREF1058_RS14020 - cardiolipin synthase, at 1,305,168 to 1,306,604 _RS14020 Position (kb) 1303 1304 1305Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1303.029 kb on - strandat 1303.109 kb on + strandat 1303.127 kb on + strandat 1303.149 kb on + strandat 1303.186 kb on + strandat 1303.545 kb on + strand, within HMPREF1058_RS14035at 1303.545 kb on + strand, within HMPREF1058_RS14035at 1303.546 kb on - strand, within HMPREF1058_RS14035at 1303.552 kb on + strandat 1303.585 kb on + strand, within HMPREF1058_RS14035at 1303.925 kb on + strand, within HMPREF1058_RS14030at 1303.992 kb on - strand, within HMPREF1058_RS14030at 1304.000 kb on + strand, within HMPREF1058_RS14030at 1304.001 kb on - strand, within HMPREF1058_RS14030at 1304.106 kb on - strand, within HMPREF1058_RS14030at 1304.120 kb on + strand, within HMPREF1058_RS14030at 1304.191 kb on + strand, within HMPREF1058_RS14030at 1304.243 kb on + strand, within HMPREF1058_RS14030at 1304.325 kb on + strand, within HMPREF1058_RS14030at 1304.331 kb on + strand, within HMPREF1058_RS14030at 1304.331 kb on + strand, within HMPREF1058_RS14030at 1304.331 kb on + strand, within HMPREF1058_RS14030at 1304.331 kb on + strand, within HMPREF1058_RS14030at 1304.332 kb on - strand, within HMPREF1058_RS14030at 1304.332 kb on - strand, within HMPREF1058_RS14030at 1304.380 kb on + strand, within HMPREF1058_RS14030at 1304.380 kb on + strand, within HMPREF1058_RS14030at 1304.434 kb on + strand, within HMPREF1058_RS14030at 1304.437 kb on + strand, within HMPREF1058_RS14030at 1304.438 kb on - strand, within HMPREF1058_RS14030at 1304.439 kb on + strand, within HMPREF1058_RS14030at 1304.440 kb on - strand, within HMPREF1058_RS14030at 1304.440 kb on - strand, within HMPREF1058_RS14030at 1304.440 kb on - strand, within HMPREF1058_RS14030at 1304.440 kb on - strand, within HMPREF1058_RS14030at 1304.443 kb on + strand, within HMPREF1058_RS14030at 1304.443 kb on + strand, within HMPREF1058_RS14030at 1304.444 kb on - strand, within HMPREF1058_RS14030at 1304.456 kb on - strand, within HMPREF1058_RS14030at 1304.501 kb on - strand, within HMPREF1058_RS14030at 1304.594 kb on - strandat 1304.633 kb on - strandat 1304.635 kb on + strandat 1304.636 kb on - strandat 1304.656 kb on + strandat 1304.659 kb on - strandat 1304.661 kb on - strandat 1304.745 kb on + strand, within HMPREF1058_RS14025at 1304.745 kb on + strand, within HMPREF1058_RS14025at 1304.746 kb on - strand, within HMPREF1058_RS14025at 1304.820 kb on + strand, within HMPREF1058_RS14025at 1304.820 kb on + strand, within HMPREF1058_RS14025at 1304.820 kb on + strand, within HMPREF1058_RS14025at 1304.932 kb on + strand, within HMPREF1058_RS14025at 1304.934 kb on + strand, within HMPREF1058_RS14025at 1304.934 kb on + strand, within HMPREF1058_RS14025at 1304.957 kb on - strand, within HMPREF1058_RS14025at 1304.958 kb on + strand, within HMPREF1058_RS14025at 1305.061 kb on - strand, within HMPREF1058_RS14025at 1305.317 kb on - strand, within HMPREF1058_RS14020at 1305.317 kb on - strand, within HMPREF1058_RS14020at 1305.320 kb on + strand, within HMPREF1058_RS14020at 1305.342 kb on - strand, within HMPREF1058_RS14020at 1305.371 kb on + strand, within HMPREF1058_RS14020at 1305.392 kb on + strand, within HMPREF1058_RS14020at 1305.442 kb on + strand, within HMPREF1058_RS14020at 1305.443 kb on - strand, within HMPREF1058_RS14020at 1305.443 kb on - strand, within HMPREF1058_RS14020at 1305.530 kb on + strand, within HMPREF1058_RS14020at 1305.601 kb on + strand, within HMPREF1058_RS14020at 1305.613 kb on - strand, within HMPREF1058_RS14020at 1305.616 kb on + strand, within HMPREF1058_RS14020at 1305.616 kb on + strand, within HMPREF1058_RS14020at 1305.641 kb on + strand, within HMPREF1058_RS14020at 1305.642 kb on - strand, within HMPREF1058_RS14020at 1305.645 kb on + strand, within HMPREF1058_RS14020

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Per-strain Table

Position Strand Gene LocusTag Fraction Arabinoxylan (Rye Flour) 2.5 mg/ml (C)
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1,303,029 - +0.6
1,303,109 + +0.4
1,303,127 + +2.0
1,303,149 + -1.6
1,303,186 + +0.2
1,303,545 + HMPREF1058_RS14035 0.60 +1.2
1,303,545 + HMPREF1058_RS14035 0.60 -0.8
1,303,546 - HMPREF1058_RS14035 0.60 -0.0
1,303,552 + +3.7
1,303,585 + HMPREF1058_RS14035 0.66 -0.4
1,303,925 + HMPREF1058_RS14030 0.12 -1.1
1,303,992 - HMPREF1058_RS14030 0.20 -0.2
1,304,000 + HMPREF1058_RS14030 0.21 -0.1
1,304,001 - HMPREF1058_RS14030 0.21 -0.6
1,304,106 - HMPREF1058_RS14030 0.34 +1.6
1,304,120 + HMPREF1058_RS14030 0.36 -1.2
1,304,191 + HMPREF1058_RS14030 0.44 -1.0
1,304,243 + HMPREF1058_RS14030 0.51 -0.9
1,304,325 + HMPREF1058_RS14030 0.61 -1.7
1,304,331 + HMPREF1058_RS14030 0.61 -0.9
1,304,331 + HMPREF1058_RS14030 0.61 +0.3
1,304,331 + HMPREF1058_RS14030 0.61 -0.8
1,304,331 + HMPREF1058_RS14030 0.61 -1.2
1,304,332 - HMPREF1058_RS14030 0.62 -0.9
1,304,332 - HMPREF1058_RS14030 0.62 +0.2
1,304,380 + HMPREF1058_RS14030 0.67 -2.2
1,304,380 + HMPREF1058_RS14030 0.67 +0.2
1,304,434 + HMPREF1058_RS14030 0.74 -1.7
1,304,437 + HMPREF1058_RS14030 0.74 -0.9
1,304,438 - HMPREF1058_RS14030 0.74 -1.1
1,304,439 + HMPREF1058_RS14030 0.75 -2.8
1,304,440 - HMPREF1058_RS14030 0.75 -2.0
1,304,440 - HMPREF1058_RS14030 0.75 -2.1
1,304,440 - HMPREF1058_RS14030 0.75 -1.3
1,304,440 - HMPREF1058_RS14030 0.75 -1.0
1,304,443 + HMPREF1058_RS14030 0.75 -2.2
1,304,443 + HMPREF1058_RS14030 0.75 -0.8
1,304,444 - HMPREF1058_RS14030 0.75 -2.9
1,304,456 - HMPREF1058_RS14030 0.77 -0.8
1,304,501 - HMPREF1058_RS14030 0.82 -2.0
1,304,594 - -0.4
1,304,633 - -1.5
1,304,635 + -2.2
1,304,636 - -0.2
1,304,656 + -1.2
1,304,659 - -0.9
1,304,661 - -1.5
1,304,745 + HMPREF1058_RS14025 0.19 +0.2
1,304,745 + HMPREF1058_RS14025 0.19 -1.7
1,304,746 - HMPREF1058_RS14025 0.19 -0.0
1,304,820 + HMPREF1058_RS14025 0.32 -0.8
1,304,820 + HMPREF1058_RS14025 0.32 -1.0
1,304,820 + HMPREF1058_RS14025 0.32 -0.2
1,304,932 + HMPREF1058_RS14025 0.52 -1.8
1,304,934 + HMPREF1058_RS14025 0.53 -1.2
1,304,934 + HMPREF1058_RS14025 0.53 -1.6
1,304,957 - HMPREF1058_RS14025 0.57 +1.6
1,304,958 + HMPREF1058_RS14025 0.57 -1.3
1,305,061 - HMPREF1058_RS14025 0.75 +0.2
1,305,317 - HMPREF1058_RS14020 0.10 +0.5
1,305,317 - HMPREF1058_RS14020 0.10 +0.6
1,305,320 + HMPREF1058_RS14020 0.11 -0.9
1,305,342 - HMPREF1058_RS14020 0.12 -1.2
1,305,371 + HMPREF1058_RS14020 0.14 -1.4
1,305,392 + HMPREF1058_RS14020 0.16 +0.6
1,305,442 + HMPREF1058_RS14020 0.19 -1.3
1,305,443 - HMPREF1058_RS14020 0.19 -0.9
1,305,443 - HMPREF1058_RS14020 0.19 -2.2
1,305,530 + HMPREF1058_RS14020 0.25 +0.5
1,305,601 + HMPREF1058_RS14020 0.30 -2.9
1,305,613 - HMPREF1058_RS14020 0.31 +1.7
1,305,616 + HMPREF1058_RS14020 0.31 -2.5
1,305,616 + HMPREF1058_RS14020 0.31 +0.6
1,305,641 + HMPREF1058_RS14020 0.33 -0.0
1,305,642 - HMPREF1058_RS14020 0.33 +1.5
1,305,645 + HMPREF1058_RS14020 0.33 +1.6

Or see this region's nucleotide sequence