Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS11490

Experiment: Rhamnogalacturonan from soy bean pectic fibre 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_RS11500 and HMPREF1058_RS11495 are separated by 309 nucleotidesHMPREF1058_RS11495 and HMPREF1058_RS11490 are separated by 201 nucleotidesHMPREF1058_RS11490 and HMPREF1058_RS11485 are separated by 119 nucleotides HMPREF1058_RS11500: HMPREF1058_RS11500 - DNA polymerase I, at 363,502 to 366,417 _RS11500 HMPREF1058_RS11495: HMPREF1058_RS11495 - DUF3836 domain-containing protein, at 366,727 to 367,113 _RS11495 HMPREF1058_RS11490: HMPREF1058_RS11490 - redox-regulated ATPase YchF, at 367,315 to 368,418 _RS11490 HMPREF1058_RS11485: HMPREF1058_RS11485 - ketopantoate reductase family protein, at 368,538 to 369,449 _RS11485 Position (kb) 367 368 369Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 366.357 kb on + strandat 366.422 kb on + strandat 366.423 kb on - strandat 366.427 kb on - strandat 366.436 kb on - strandat 366.478 kb on + strandat 366.492 kb on + strandat 366.534 kb on + strandat 366.534 kb on + strandat 366.562 kb on + strandat 366.571 kb on + strandat 366.712 kb on + strandat 366.713 kb on - strandat 366.715 kb on + strandat 366.717 kb on + strandat 366.717 kb on + strandat 366.718 kb on - strandat 366.773 kb on + strand, within HMPREF1058_RS11495at 366.777 kb on + strand, within HMPREF1058_RS11495at 366.778 kb on - strand, within HMPREF1058_RS11495at 366.842 kb on + strand, within HMPREF1058_RS11495at 366.843 kb on - strand, within HMPREF1058_RS11495at 366.851 kb on + strand, within HMPREF1058_RS11495at 366.895 kb on - strand, within HMPREF1058_RS11495at 366.897 kb on + strand, within HMPREF1058_RS11495at 366.898 kb on - strand, within HMPREF1058_RS11495at 366.898 kb on - strand, within HMPREF1058_RS11495at 366.901 kb on + strand, within HMPREF1058_RS11495at 366.904 kb on - strand, within HMPREF1058_RS11495at 366.916 kb on + strand, within HMPREF1058_RS11495at 366.916 kb on + strand, within HMPREF1058_RS11495at 366.942 kb on + strand, within HMPREF1058_RS11495at 367.011 kb on + strand, within HMPREF1058_RS11495at 367.011 kb on + strand, within HMPREF1058_RS11495at 367.012 kb on - strand, within HMPREF1058_RS11495at 367.015 kb on + strandat 367.016 kb on - strand, within HMPREF1058_RS11495at 367.023 kb on + strand, within HMPREF1058_RS11495at 367.035 kb on + strandat 367.045 kb on + strand, within HMPREF1058_RS11495at 367.076 kb on + strandat 367.077 kb on - strandat 367.077 kb on - strandat 367.101 kb on + strandat 367.102 kb on - strandat 367.111 kb on + strandat 367.111 kb on + strandat 367.111 kb on + strandat 367.111 kb on + strandat 367.111 kb on + strandat 367.123 kb on - strandat 367.123 kb on - strandat 367.214 kb on - strandat 367.216 kb on - strandat 367.290 kb on + strandat 367.291 kb on - strandat 367.309 kb on + strandat 367.332 kb on + strandat 367.436 kb on + strand, within HMPREF1058_RS11490at 367.437 kb on - strand, within HMPREF1058_RS11490at 367.623 kb on - strand, within HMPREF1058_RS11490at 367.801 kb on + strand, within HMPREF1058_RS11490at 367.802 kb on - strand, within HMPREF1058_RS11490at 367.859 kb on + strand, within HMPREF1058_RS11490at 367.930 kb on + strand, within HMPREF1058_RS11490at 367.931 kb on - strand, within HMPREF1058_RS11490at 367.934 kb on + strand, within HMPREF1058_RS11490at 367.975 kb on + strand, within HMPREF1058_RS11490at 367.976 kb on - strand, within HMPREF1058_RS11490at 368.071 kb on + strand, within HMPREF1058_RS11490at 368.288 kb on + strand, within HMPREF1058_RS11490at 368.314 kb on + strandat 368.372 kb on - strandat 368.378 kb on + strandat 368.414 kb on + strandat 368.414 kb on + strandat 368.416 kb on + strandat 368.417 kb on - strandat 368.534 kb on + strandat 368.534 kb on + strandat 368.535 kb on - strandat 368.687 kb on - strand, within HMPREF1058_RS11485at 368.708 kb on + strand, within HMPREF1058_RS11485at 368.709 kb on - strand, within HMPREF1058_RS11485at 368.710 kb on + strand, within HMPREF1058_RS11485at 368.710 kb on + strand, within HMPREF1058_RS11485at 368.711 kb on - strand, within HMPREF1058_RS11485at 368.733 kb on + strand, within HMPREF1058_RS11485at 368.733 kb on + strand, within HMPREF1058_RS11485at 368.893 kb on + strand, within HMPREF1058_RS11485at 368.969 kb on - strand, within HMPREF1058_RS11485at 369.040 kb on + strand, within HMPREF1058_RS11485at 369.041 kb on - strand, within HMPREF1058_RS11485at 369.245 kb on + strand, within HMPREF1058_RS11485

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Per-strain Table

Position Strand Gene LocusTag Fraction Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml (C)
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366,357 + -0.7
366,422 + -0.5
366,423 - +0.5
366,427 - -0.3
366,436 - -2.3
366,478 + -0.5
366,492 + -1.6
366,534 + +0.5
366,534 + +0.4
366,562 + +0.6
366,571 + -0.0
366,712 + +0.6
366,713 - -0.1
366,715 + -0.1
366,717 + -1.1
366,717 + -0.0
366,718 - -0.2
366,773 + HMPREF1058_RS11495 0.12 +0.1
366,777 + HMPREF1058_RS11495 0.13 +0.6
366,778 - HMPREF1058_RS11495 0.13 -0.8
366,842 + HMPREF1058_RS11495 0.30 +0.1
366,843 - HMPREF1058_RS11495 0.30 -0.1
366,851 + HMPREF1058_RS11495 0.32 -0.0
366,895 - HMPREF1058_RS11495 0.43 -0.3
366,897 + HMPREF1058_RS11495 0.44 +0.1
366,898 - HMPREF1058_RS11495 0.44 +1.5
366,898 - HMPREF1058_RS11495 0.44 +0.5
366,901 + HMPREF1058_RS11495 0.45 +0.4
366,904 - HMPREF1058_RS11495 0.46 -0.1
366,916 + HMPREF1058_RS11495 0.49 -0.0
366,916 + HMPREF1058_RS11495 0.49 -0.1
366,942 + HMPREF1058_RS11495 0.56 +1.9
367,011 + HMPREF1058_RS11495 0.73 +0.5
367,011 + HMPREF1058_RS11495 0.73 +0.6
367,012 - HMPREF1058_RS11495 0.74 -0.3
367,015 + +0.4
367,016 - HMPREF1058_RS11495 0.75 -0.7
367,023 + HMPREF1058_RS11495 0.76 -0.1
367,035 + +0.8
367,045 + HMPREF1058_RS11495 0.82 -0.0
367,076 + -1.0
367,077 - +0.5
367,077 - +1.6
367,101 + +0.2
367,102 - +0.1
367,111 + -1.0
367,111 + +1.7
367,111 + -0.1
367,111 + +0.1
367,111 + +0.4
367,123 - +0.1
367,123 - +0.3
367,214 - -0.1
367,216 - +1.0
367,290 + -0.4
367,291 - +0.4
367,309 + -1.1
367,332 + -0.6
367,436 + HMPREF1058_RS11490 0.11 -1.2
367,437 - HMPREF1058_RS11490 0.11 -0.5
367,623 - HMPREF1058_RS11490 0.28 -1.5
367,801 + HMPREF1058_RS11490 0.44 -1.8
367,802 - HMPREF1058_RS11490 0.44 -3.1
367,859 + HMPREF1058_RS11490 0.49 +2.0
367,930 + HMPREF1058_RS11490 0.56 -1.9
367,931 - HMPREF1058_RS11490 0.56 -2.0
367,934 + HMPREF1058_RS11490 0.56 -3.8
367,975 + HMPREF1058_RS11490 0.60 -1.5
367,976 - HMPREF1058_RS11490 0.60 -0.6
368,071 + HMPREF1058_RS11490 0.68 -1.5
368,288 + HMPREF1058_RS11490 0.88 -1.6
368,314 + +0.0
368,372 - -2.3
368,378 + -1.4
368,414 + +0.3
368,414 + +0.3
368,416 + +0.4
368,417 - +0.1
368,534 + -0.4
368,534 + +0.1
368,535 - +0.4
368,687 - HMPREF1058_RS11485 0.16 -0.2
368,708 + HMPREF1058_RS11485 0.19 -0.6
368,709 - HMPREF1058_RS11485 0.19 +1.1
368,710 + HMPREF1058_RS11485 0.19 +1.5
368,710 + HMPREF1058_RS11485 0.19 +2.1
368,711 - HMPREF1058_RS11485 0.19 +0.5
368,733 + HMPREF1058_RS11485 0.21 -0.3
368,733 + HMPREF1058_RS11485 0.21 -0.0
368,893 + HMPREF1058_RS11485 0.39 +2.2
368,969 - HMPREF1058_RS11485 0.47 -0.4
369,040 + HMPREF1058_RS11485 0.55 +1.0
369,041 - HMPREF1058_RS11485 0.55 +0.8
369,245 + HMPREF1058_RS11485 0.78 +0.5

Or see this region's nucleotide sequence