Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01045

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse3; day1

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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_RS21555 and HMPREF1058_RS01045 are separated by 434 nucleotidesHMPREF1058_RS01045 and HMPREF1058_RS01040 are separated by 1 nucleotidesHMPREF1058_RS01040 and HMPREF1058_RS21250 are separated by 14 nucleotides HMPREF1058_RS21555: HMPREF1058_RS21555 - hypothetical protein, at 222,690 to 223,205 _RS21555 HMPREF1058_RS01045: HMPREF1058_RS01045 - hypothetical protein, at 223,640 to 224,137 _RS01045 HMPREF1058_RS01040: HMPREF1058_RS01040 - hypothetical protein, at 224,139 to 224,411 _RS01040 HMPREF1058_RS21250: HMPREF1058_RS21250 - hypothetical protein, at 224,426 to 225,064 _RS21250 Position (kb) 223 224 225Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 222.641 kb on + strandat 222.694 kb on + strandat 222.695 kb on - strandat 222.695 kb on - strandat 222.696 kb on + strandat 222.696 kb on + strandat 222.696 kb on + strandat 222.697 kb on - strandat 222.697 kb on - strandat 222.697 kb on - strandat 222.742 kb on - strandat 222.742 kb on - strand, within HMPREF1058_RS21555at 222.778 kb on - strand, within HMPREF1058_RS21555at 222.778 kb on - strand, within HMPREF1058_RS21555at 222.780 kb on + strand, within HMPREF1058_RS21555at 222.780 kb on + strand, within HMPREF1058_RS21555at 222.808 kb on + strand, within HMPREF1058_RS21555at 222.809 kb on - strand, within HMPREF1058_RS21555at 222.828 kb on - strand, within HMPREF1058_RS21555at 222.836 kb on + strand, within HMPREF1058_RS21555at 222.836 kb on - strand, within HMPREF1058_RS21555at 222.837 kb on - strand, within HMPREF1058_RS21555at 222.837 kb on - strand, within HMPREF1058_RS21555at 222.838 kb on + strand, within HMPREF1058_RS21555at 222.839 kb on - strand, within HMPREF1058_RS21555at 222.839 kb on - strand, within HMPREF1058_RS21555at 222.841 kb on + strand, within HMPREF1058_RS21555at 222.841 kb on + strand, within HMPREF1058_RS21555at 222.842 kb on - strand, within HMPREF1058_RS21555at 222.845 kb on + strand, within HMPREF1058_RS21555at 222.849 kb on - strand, within HMPREF1058_RS21555at 222.893 kb on + strand, within HMPREF1058_RS21555at 222.893 kb on + strand, within HMPREF1058_RS21555at 222.894 kb on - strand, within HMPREF1058_RS21555at 222.914 kb on + strand, within HMPREF1058_RS21555at 222.914 kb on + strand, within HMPREF1058_RS21555at 222.914 kb on + strand, within HMPREF1058_RS21555at 222.954 kb on - strand, within HMPREF1058_RS21555at 222.959 kb on + strand, within HMPREF1058_RS21555at 222.995 kb on + strand, within HMPREF1058_RS21555at 223.004 kb on + strandat 223.011 kb on - strand, within HMPREF1058_RS21555at 223.022 kb on + strand, within HMPREF1058_RS21555at 223.025 kb on + strand, within HMPREF1058_RS21555at 223.076 kb on + strand, within HMPREF1058_RS21555at 223.135 kb on - strand, within HMPREF1058_RS21555at 223.177 kb on - strandat 223.180 kb on - strandat 223.245 kb on + strandat 223.245 kb on + strandat 223.251 kb on + strandat 223.251 kb on + strandat 223.281 kb on + strandat 223.281 kb on + strandat 223.282 kb on - strandat 223.282 kb on - strandat 223.306 kb on + strandat 223.312 kb on - strandat 223.332 kb on + strandat 223.332 kb on + strandat 223.333 kb on - strandat 223.333 kb on - strandat 223.338 kb on + strandat 223.340 kb on + strandat 223.603 kb on + strandat 223.627 kb on + strandat 223.652 kb on + strandat 223.654 kb on + strandat 223.800 kb on + strand, within HMPREF1058_RS01045at 223.810 kb on + strand, within HMPREF1058_RS01045at 223.840 kb on + strand, within HMPREF1058_RS01045at 223.923 kb on - strand, within HMPREF1058_RS01045at 223.968 kb on + strand, within HMPREF1058_RS01045at 223.968 kb on + strand, within HMPREF1058_RS01045at 223.968 kb on + strand, within HMPREF1058_RS01045at 223.969 kb on - strand, within HMPREF1058_RS01045at 223.969 kb on - strand, within HMPREF1058_RS01045at 223.969 kb on - strand, within HMPREF1058_RS01045at 223.969 kb on - strand, within HMPREF1058_RS01045at 223.969 kb on - strand, within HMPREF1058_RS01045at 223.972 kb on + strand, within HMPREF1058_RS01045at 223.972 kb on + strand, within HMPREF1058_RS01045at 223.973 kb on - strand, within HMPREF1058_RS01045at 223.973 kb on - strand, within HMPREF1058_RS01045at 223.973 kb on - strand, within HMPREF1058_RS01045at 223.973 kb on - strand, within HMPREF1058_RS01045at 223.976 kb on + strand, within HMPREF1058_RS01045at 223.977 kb on - strand, within HMPREF1058_RS01045at 224.002 kb on - strand, within HMPREF1058_RS01045at 224.117 kb on + strandat 224.118 kb on - strandat 224.140 kb on + strandat 224.141 kb on - strandat 224.313 kb on - strand, within HMPREF1058_RS01040at 224.313 kb on - strand, within HMPREF1058_RS01040at 224.314 kb on + strand, within HMPREF1058_RS01040at 224.314 kb on + strand, within HMPREF1058_RS01040at 224.315 kb on - strand, within HMPREF1058_RS01040at 224.316 kb on + strand, within HMPREF1058_RS01040at 224.355 kb on - strand, within HMPREF1058_RS01040at 224.370 kb on - strand, within HMPREF1058_RS01040at 224.412 kb on - strandat 224.412 kb on - strandat 224.418 kb on + strandat 224.436 kb on + strandat 224.456 kb on - strandat 224.461 kb on + strandat 224.461 kb on + strandat 224.468 kb on - strandat 224.497 kb on + strand, within HMPREF1058_RS21250at 224.497 kb on + strand, within HMPREF1058_RS21250at 224.552 kb on + strand, within HMPREF1058_RS21250at 224.566 kb on + strand, within HMPREF1058_RS21250at 224.577 kb on + strand, within HMPREF1058_RS21250at 224.577 kb on + strand, within HMPREF1058_RS21250at 224.577 kb on + strand, within HMPREF1058_RS21250at 224.577 kb on + strand, within HMPREF1058_RS21250at 224.579 kb on + strand, within HMPREF1058_RS21250at 224.581 kb on + strand, within HMPREF1058_RS21250at 224.581 kb on + strand, within HMPREF1058_RS21250at 224.581 kb on + strand, within HMPREF1058_RS21250at 224.582 kb on - strand, within HMPREF1058_RS21250at 224.584 kb on + strand, within HMPREF1058_RS21250at 224.584 kb on + strand, within HMPREF1058_RS21250at 224.585 kb on - strand, within HMPREF1058_RS21250at 224.618 kb on + strand, within HMPREF1058_RS21250at 224.630 kb on - strand, within HMPREF1058_RS21250at 224.632 kb on + strand, within HMPREF1058_RS21250at 224.721 kb on + strand, within HMPREF1058_RS21250at 224.823 kb on - strand, within HMPREF1058_RS21250at 224.842 kb on - strand, within HMPREF1058_RS21250at 224.889 kb on - strand, within HMPREF1058_RS21250at 224.913 kb on + strand, within HMPREF1058_RS21250at 225.068 kb on - strandat 225.074 kb on - strandat 225.074 kb on - strandat 225.079 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse3; day1
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222,641 + +4.3
222,694 + -0.2
222,695 - -1.5
222,695 - -0.2
222,696 + +2.7
222,696 + +1.8
222,696 + +3.5
222,697 - +1.2
222,697 - +3.9
222,697 - -2.0
222,742 - -0.8
222,742 - HMPREF1058_RS21555 0.10 -0.4
222,778 - HMPREF1058_RS21555 0.17 -0.2
222,778 - HMPREF1058_RS21555 0.17 +1.6
222,780 + HMPREF1058_RS21555 0.17 +0.8
222,780 + HMPREF1058_RS21555 0.17 +3.9
222,808 + HMPREF1058_RS21555 0.23 +1.3
222,809 - HMPREF1058_RS21555 0.23 -3.1
222,828 - HMPREF1058_RS21555 0.27 +1.7
222,836 + HMPREF1058_RS21555 0.28 -3.0
222,836 - HMPREF1058_RS21555 0.28 +1.4
222,837 - HMPREF1058_RS21555 0.28 +2.1
222,837 - HMPREF1058_RS21555 0.28 +1.9
222,838 + HMPREF1058_RS21555 0.29 -0.8
222,839 - HMPREF1058_RS21555 0.29 +3.3
222,839 - HMPREF1058_RS21555 0.29 -1.8
222,841 + HMPREF1058_RS21555 0.29 -0.8
222,841 + HMPREF1058_RS21555 0.29 +1.2
222,842 - HMPREF1058_RS21555 0.29 -0.2
222,845 + HMPREF1058_RS21555 0.30 -3.6
222,849 - HMPREF1058_RS21555 0.31 +1.8
222,893 + HMPREF1058_RS21555 0.39 +1.8
222,893 + HMPREF1058_RS21555 0.39 +0.8
222,894 - HMPREF1058_RS21555 0.40 -2.5
222,914 + HMPREF1058_RS21555 0.43 +0.8
222,914 + HMPREF1058_RS21555 0.43 -1.1
222,914 + HMPREF1058_RS21555 0.43 +0.8
222,954 - HMPREF1058_RS21555 0.51 -0.2
222,959 + HMPREF1058_RS21555 0.52 -1.8
222,995 + HMPREF1058_RS21555 0.59 -0.9
223,004 + +3.1
223,011 - HMPREF1058_RS21555 0.62 -0.2
223,022 + HMPREF1058_RS21555 0.64 -0.7
223,025 + HMPREF1058_RS21555 0.65 -0.8
223,076 + HMPREF1058_RS21555 0.75 -2.5
223,135 - HMPREF1058_RS21555 0.86 -1.2
223,177 - -1.2
223,180 - -1.2
223,245 + +1.1
223,245 + -3.4
223,251 + -1.2
223,251 + +1.5
223,281 + +0.5
223,281 + -2.4
223,282 - +0.9
223,282 - -0.2
223,306 + +0.8
223,312 - +1.2
223,332 + -2.0
223,332 + +1.0
223,333 - +2.3
223,333 - -0.8
223,338 + +3.0
223,340 + -0.2
223,603 + -2.2
223,627 + -1.5
223,652 + -2.0
223,654 + -2.4
223,800 + HMPREF1058_RS01045 0.32 +0.8
223,810 + HMPREF1058_RS01045 0.34 +1.1
223,840 + HMPREF1058_RS01045 0.40 +2.3
223,923 - HMPREF1058_RS01045 0.57 -1.2
223,968 + HMPREF1058_RS01045 0.66 +1.8
223,968 + HMPREF1058_RS01045 0.66 +0.4
223,968 + HMPREF1058_RS01045 0.66 +2.2
223,969 - HMPREF1058_RS01045 0.66 -2.4
223,969 - HMPREF1058_RS01045 0.66 +0.8
223,969 - HMPREF1058_RS01045 0.66 -2.4
223,969 - HMPREF1058_RS01045 0.66 -1.5
223,969 - HMPREF1058_RS01045 0.66 +0.9
223,972 + HMPREF1058_RS01045 0.67 -0.9
223,972 + HMPREF1058_RS01045 0.67 -0.8
223,973 - HMPREF1058_RS01045 0.67 +0.8
223,973 - HMPREF1058_RS01045 0.67 -2.9
223,973 - HMPREF1058_RS01045 0.67 -0.2
223,973 - HMPREF1058_RS01045 0.67 -0.4
223,976 + HMPREF1058_RS01045 0.67 +1.3
223,977 - HMPREF1058_RS01045 0.68 -2.0
224,002 - HMPREF1058_RS01045 0.73 -0.2
224,117 + -2.4
224,118 - -2.4
224,140 + -0.0
224,141 - -0.2
224,313 - HMPREF1058_RS01040 0.64 -1.5
224,313 - HMPREF1058_RS01040 0.64 -1.5
224,314 + HMPREF1058_RS01040 0.64 -1.8
224,314 + HMPREF1058_RS01040 0.64 -1.4
224,315 - HMPREF1058_RS01040 0.64 -1.2
224,316 + HMPREF1058_RS01040 0.65 +1.3
224,355 - HMPREF1058_RS01040 0.79 -3.3
224,370 - HMPREF1058_RS01040 0.85 +2.5
224,412 - -1.8
224,412 - +1.1
224,418 + -1.8
224,436 + +1.1
224,456 - -1.5
224,461 + -3.1
224,461 + +0.2
224,468 - -2.4
224,497 + HMPREF1058_RS21250 0.11 -2.4
224,497 + HMPREF1058_RS21250 0.11 -2.0
224,552 + HMPREF1058_RS21250 0.20 +2.5
224,566 + HMPREF1058_RS21250 0.22 +1.0
224,577 + HMPREF1058_RS21250 0.24 -2.0
224,577 + HMPREF1058_RS21250 0.24 +1.0
224,577 + HMPREF1058_RS21250 0.24 -3.0
224,577 + HMPREF1058_RS21250 0.24 -1.8
224,579 + HMPREF1058_RS21250 0.24 +0.5
224,581 + HMPREF1058_RS21250 0.24 +0.3
224,581 + HMPREF1058_RS21250 0.24 -3.3
224,581 + HMPREF1058_RS21250 0.24 +4.7
224,582 - HMPREF1058_RS21250 0.24 -0.8
224,584 + HMPREF1058_RS21250 0.25 -2.4
224,584 + HMPREF1058_RS21250 0.25 -0.8
224,585 - HMPREF1058_RS21250 0.25 -2.0
224,618 + HMPREF1058_RS21250 0.30 +0.8
224,630 - HMPREF1058_RS21250 0.32 -1.5
224,632 + HMPREF1058_RS21250 0.32 +0.4
224,721 + HMPREF1058_RS21250 0.46 +0.4
224,823 - HMPREF1058_RS21250 0.62 -1.8
224,842 - HMPREF1058_RS21250 0.65 -0.2
224,889 - HMPREF1058_RS21250 0.72 +0.8
224,913 + HMPREF1058_RS21250 0.76 -1.8
225,068 - -1.5
225,074 - +2.4
225,074 - -0.2
225,079 - -0.2

Or see this region's nucleotide sequence