Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS07115

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day5

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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_RS07120 and HMPREF1058_RS07115 overlap by 1 nucleotidesHMPREF1058_RS07115 and HMPREF1058_RS07110 are separated by 148 nucleotides HMPREF1058_RS07120: HMPREF1058_RS07120 - efflux RND transporter permease subunit, at 307,938 to 310,985 _RS07120 HMPREF1058_RS07115: HMPREF1058_RS07115 - TolC family protein, at 310,985 to 312,277 _RS07115 HMPREF1058_RS07110: HMPREF1058_RS07110 - BamA/TamA family outer membrane protein, at 312,426 to 313,613 _RS07110 Position (kb) 310 311 312 313Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 310.249 kb on + strand, within HMPREF1058_RS07120at 310.256 kb on + strand, within HMPREF1058_RS07120at 310.317 kb on + strand, within HMPREF1058_RS07120at 310.317 kb on + strand, within HMPREF1058_RS07120at 310.319 kb on + strand, within HMPREF1058_RS07120at 310.319 kb on + strand, within HMPREF1058_RS07120at 310.319 kb on + strand, within HMPREF1058_RS07120at 310.320 kb on - strand, within HMPREF1058_RS07120at 310.353 kb on - strand, within HMPREF1058_RS07120at 310.416 kb on - strand, within HMPREF1058_RS07120at 310.416 kb on - strand, within HMPREF1058_RS07120at 310.424 kb on - strand, within HMPREF1058_RS07120at 310.454 kb on + strand, within HMPREF1058_RS07120at 310.492 kb on + strand, within HMPREF1058_RS07120at 310.595 kb on + strand, within HMPREF1058_RS07120at 310.706 kb on + strandat 310.802 kb on + strandat 310.803 kb on - strandat 310.895 kb on + strandat 310.950 kb on + strandat 310.956 kb on - strandat 310.993 kb on + strandat 311.003 kb on + strandat 311.004 kb on - strandat 311.009 kb on - strandat 311.010 kb on + strandat 311.011 kb on - strandat 311.011 kb on - strandat 311.125 kb on + strand, within HMPREF1058_RS07115at 311.125 kb on + strand, within HMPREF1058_RS07115at 311.126 kb on - strand, within HMPREF1058_RS07115at 311.217 kb on - strand, within HMPREF1058_RS07115at 311.278 kb on - strand, within HMPREF1058_RS07115at 311.278 kb on - strand, within HMPREF1058_RS07115at 311.293 kb on + strand, within HMPREF1058_RS07115at 311.294 kb on - strand, within HMPREF1058_RS07115at 311.294 kb on - strand, within HMPREF1058_RS07115at 311.294 kb on - strand, within HMPREF1058_RS07115at 311.294 kb on - strand, within HMPREF1058_RS07115at 311.294 kb on - strand, within HMPREF1058_RS07115at 311.294 kb on - strand, within HMPREF1058_RS07115at 311.340 kb on + strand, within HMPREF1058_RS07115at 311.389 kb on + strand, within HMPREF1058_RS07115at 311.393 kb on + strand, within HMPREF1058_RS07115at 311.394 kb on - strand, within HMPREF1058_RS07115at 311.412 kb on - strand, within HMPREF1058_RS07115at 311.441 kb on + strand, within HMPREF1058_RS07115at 311.442 kb on - strand, within HMPREF1058_RS07115at 311.460 kb on - strand, within HMPREF1058_RS07115at 311.471 kb on - strand, within HMPREF1058_RS07115at 311.500 kb on + strand, within HMPREF1058_RS07115at 311.505 kb on - strand, within HMPREF1058_RS07115at 311.517 kb on - strand, within HMPREF1058_RS07115at 311.589 kb on - strand, within HMPREF1058_RS07115at 311.617 kb on + strand, within HMPREF1058_RS07115at 311.618 kb on - strand, within HMPREF1058_RS07115at 311.801 kb on + strand, within HMPREF1058_RS07115at 311.801 kb on + strand, within HMPREF1058_RS07115at 311.881 kb on + strand, within HMPREF1058_RS07115at 311.892 kb on - strand, within HMPREF1058_RS07115at 311.892 kb on - strand, within HMPREF1058_RS07115at 311.936 kb on - strand, within HMPREF1058_RS07115at 311.992 kb on + strand, within HMPREF1058_RS07115at 311.993 kb on - strand, within HMPREF1058_RS07115at 312.064 kb on + strand, within HMPREF1058_RS07115at 312.065 kb on - strand, within HMPREF1058_RS07115at 312.122 kb on + strand, within HMPREF1058_RS07115at 312.123 kb on - strand, within HMPREF1058_RS07115at 312.124 kb on + strandat 312.124 kb on + strand, within HMPREF1058_RS07115at 312.133 kb on + strand, within HMPREF1058_RS07115at 312.187 kb on + strandat 312.187 kb on + strandat 312.188 kb on - strandat 312.188 kb on - strandat 312.206 kb on + strandat 312.207 kb on - strandat 312.299 kb on - strandat 312.303 kb on + strandat 312.304 kb on - strandat 312.376 kb on + strandat 312.417 kb on + strandat 312.459 kb on - strandat 312.464 kb on + strandat 312.465 kb on - strandat 312.465 kb on - strandat 312.510 kb on + strandat 312.611 kb on + strand, within HMPREF1058_RS07110at 312.657 kb on + strand, within HMPREF1058_RS07110at 312.657 kb on + strand, within HMPREF1058_RS07110at 312.748 kb on + strand, within HMPREF1058_RS07110at 312.749 kb on - strand, within HMPREF1058_RS07110at 312.783 kb on + strand, within HMPREF1058_RS07110at 312.783 kb on + strand, within HMPREF1058_RS07110at 312.785 kb on + strand, within HMPREF1058_RS07110at 312.785 kb on + strand, within HMPREF1058_RS07110at 312.785 kb on + strand, within HMPREF1058_RS07110at 312.786 kb on - strand, within HMPREF1058_RS07110at 312.809 kb on + strand, within HMPREF1058_RS07110at 312.840 kb on + strand, within HMPREF1058_RS07110at 312.842 kb on + strand, within HMPREF1058_RS07110at 312.904 kb on + strand, within HMPREF1058_RS07110at 312.905 kb on - strand, within HMPREF1058_RS07110at 312.905 kb on - strand, within HMPREF1058_RS07110at 312.905 kb on - strand, within HMPREF1058_RS07110at 312.982 kb on + strand, within HMPREF1058_RS07110at 312.982 kb on + strand, within HMPREF1058_RS07110at 312.983 kb on - strand, within HMPREF1058_RS07110at 312.984 kb on + strand, within HMPREF1058_RS07110at 312.984 kb on + strand, within HMPREF1058_RS07110at 312.985 kb on - strand, within HMPREF1058_RS07110at 312.985 kb on - strand, within HMPREF1058_RS07110at 312.985 kb on - strand, within HMPREF1058_RS07110at 312.986 kb on + strand, within HMPREF1058_RS07110at 312.987 kb on - strand, within HMPREF1058_RS07110at 312.988 kb on + strand, within HMPREF1058_RS07110at 312.988 kb on + strand, within HMPREF1058_RS07110at 312.988 kb on + strand, within HMPREF1058_RS07110at 312.989 kb on - strand, within HMPREF1058_RS07110at 312.995 kb on + strand, within HMPREF1058_RS07110at 313.102 kb on - strand, within HMPREF1058_RS07110at 313.143 kb on + strand, within HMPREF1058_RS07110at 313.224 kb on + strand, within HMPREF1058_RS07110at 313.225 kb on - strand, within HMPREF1058_RS07110at 313.268 kb on - strand, within HMPREF1058_RS07110

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day5
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310,249 + HMPREF1058_RS07120 0.76 -1.0
310,256 + HMPREF1058_RS07120 0.76 -0.8
310,317 + HMPREF1058_RS07120 0.78 -0.1
310,317 + HMPREF1058_RS07120 0.78 -0.9
310,319 + HMPREF1058_RS07120 0.78 -1.0
310,319 + HMPREF1058_RS07120 0.78 -0.2
310,319 + HMPREF1058_RS07120 0.78 +2.4
310,320 - HMPREF1058_RS07120 0.78 +1.7
310,353 - HMPREF1058_RS07120 0.79 +0.1
310,416 - HMPREF1058_RS07120 0.81 +0.6
310,416 - HMPREF1058_RS07120 0.81 -0.0
310,424 - HMPREF1058_RS07120 0.82 -1.0
310,454 + HMPREF1058_RS07120 0.83 +0.5
310,492 + HMPREF1058_RS07120 0.84 -0.4
310,595 + HMPREF1058_RS07120 0.87 +0.8
310,706 + -1.0
310,802 + -2.2
310,803 - +0.8
310,895 + -1.3
310,950 + -1.0
310,956 - -0.1
310,993 + +1.5
311,003 + -0.9
311,004 - -1.4
311,009 - -1.1
311,010 + -1.6
311,011 - -0.0
311,011 - -0.1
311,125 + HMPREF1058_RS07115 0.11 -0.7
311,125 + HMPREF1058_RS07115 0.11 -0.7
311,126 - HMPREF1058_RS07115 0.11 -3.3
311,217 - HMPREF1058_RS07115 0.18 -0.3
311,278 - HMPREF1058_RS07115 0.23 -0.4
311,278 - HMPREF1058_RS07115 0.23 +0.6
311,293 + HMPREF1058_RS07115 0.24 -1.9
311,294 - HMPREF1058_RS07115 0.24 -1.6
311,294 - HMPREF1058_RS07115 0.24 -1.7
311,294 - HMPREF1058_RS07115 0.24 -0.0
311,294 - HMPREF1058_RS07115 0.24 -0.0
311,294 - HMPREF1058_RS07115 0.24 -1.1
311,294 - HMPREF1058_RS07115 0.24 -0.7
311,340 + HMPREF1058_RS07115 0.27 -1.0
311,389 + HMPREF1058_RS07115 0.31 +0.3
311,393 + HMPREF1058_RS07115 0.32 -1.6
311,394 - HMPREF1058_RS07115 0.32 -1.6
311,412 - HMPREF1058_RS07115 0.33 -0.2
311,441 + HMPREF1058_RS07115 0.35 +1.4
311,442 - HMPREF1058_RS07115 0.35 +0.5
311,460 - HMPREF1058_RS07115 0.37 -2.0
311,471 - HMPREF1058_RS07115 0.38 -0.0
311,500 + HMPREF1058_RS07115 0.40 -1.0
311,505 - HMPREF1058_RS07115 0.40 -1.6
311,517 - HMPREF1058_RS07115 0.41 -1.7
311,589 - HMPREF1058_RS07115 0.47 +0.1
311,617 + HMPREF1058_RS07115 0.49 -2.3
311,618 - HMPREF1058_RS07115 0.49 -0.3
311,801 + HMPREF1058_RS07115 0.63 -1.2
311,801 + HMPREF1058_RS07115 0.63 -0.4
311,881 + HMPREF1058_RS07115 0.69 -1.0
311,892 - HMPREF1058_RS07115 0.70 -0.5
311,892 - HMPREF1058_RS07115 0.70 -0.3
311,936 - HMPREF1058_RS07115 0.74 -0.0
311,992 + HMPREF1058_RS07115 0.78 +1.4
311,993 - HMPREF1058_RS07115 0.78 -1.0
312,064 + HMPREF1058_RS07115 0.83 -0.7
312,065 - HMPREF1058_RS07115 0.84 -3.8
312,122 + HMPREF1058_RS07115 0.88 -1.8
312,123 - HMPREF1058_RS07115 0.88 -3.1
312,124 + +1.0
312,124 + HMPREF1058_RS07115 0.88 -2.2
312,133 + HMPREF1058_RS07115 0.89 -3.0
312,187 + -0.4
312,187 + -1.4
312,188 - -0.0
312,188 - -1.0
312,206 + -2.1
312,207 - +1.1
312,299 - -2.6
312,303 + +0.1
312,304 - -1.8
312,376 + -0.4
312,417 + -0.8
312,459 - -1.5
312,464 + +0.9
312,465 - +2.9
312,465 - -0.6
312,510 + +1.8
312,611 + HMPREF1058_RS07110 0.16 +1.0
312,657 + HMPREF1058_RS07110 0.19 -0.6
312,657 + HMPREF1058_RS07110 0.19 -0.0
312,748 + HMPREF1058_RS07110 0.27 -1.0
312,749 - HMPREF1058_RS07110 0.27 -0.1
312,783 + HMPREF1058_RS07110 0.30 +0.4
312,783 + HMPREF1058_RS07110 0.30 +0.7
312,785 + HMPREF1058_RS07110 0.30 +0.6
312,785 + HMPREF1058_RS07110 0.30 -0.0
312,785 + HMPREF1058_RS07110 0.30 -3.4
312,786 - HMPREF1058_RS07110 0.30 +1.5
312,809 + HMPREF1058_RS07110 0.32 -1.8
312,840 + HMPREF1058_RS07110 0.35 -2.0
312,842 + HMPREF1058_RS07110 0.35 -2.6
312,904 + HMPREF1058_RS07110 0.40 +1.0
312,905 - HMPREF1058_RS07110 0.40 -2.6
312,905 - HMPREF1058_RS07110 0.40 +0.5
312,905 - HMPREF1058_RS07110 0.40 +1.4
312,982 + HMPREF1058_RS07110 0.47 -2.3
312,982 + HMPREF1058_RS07110 0.47 +0.3
312,983 - HMPREF1058_RS07110 0.47 +1.9
312,984 + HMPREF1058_RS07110 0.47 +0.4
312,984 + HMPREF1058_RS07110 0.47 +1.0
312,985 - HMPREF1058_RS07110 0.47 -1.5
312,985 - HMPREF1058_RS07110 0.47 +3.0
312,985 - HMPREF1058_RS07110 0.47 +1.4
312,986 + HMPREF1058_RS07110 0.47 +0.7
312,987 - HMPREF1058_RS07110 0.47 +1.0
312,988 + HMPREF1058_RS07110 0.47 +0.3
312,988 + HMPREF1058_RS07110 0.47 -0.8
312,988 + HMPREF1058_RS07110 0.47 -0.2
312,989 - HMPREF1058_RS07110 0.47 -0.8
312,995 + HMPREF1058_RS07110 0.48 +1.6
313,102 - HMPREF1058_RS07110 0.57 -0.0
313,143 + HMPREF1058_RS07110 0.60 +2.0
313,224 + HMPREF1058_RS07110 0.67 -0.3
313,225 - HMPREF1058_RS07110 0.67 +0.4
313,268 - HMPREF1058_RS07110 0.71 -0.0

Or see this region's nucleotide sequence