Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS02800

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_RS02810 and HMPREF1058_RS02805 are separated by 338 nucleotidesHMPREF1058_RS02805 and HMPREF1058_RS02800 are separated by 231 nucleotidesHMPREF1058_RS02800 and HMPREF1058_RS02795 are separated by 31 nucleotidesHMPREF1058_RS02795 and HMPREF1058_RS02790 are separated by 1 nucleotides HMPREF1058_RS02810: HMPREF1058_RS02810 - RNA polymerase sigma-70 factor, at 89,640 to 90,230 _RS02810 HMPREF1058_RS02805: HMPREF1058_RS02805 - tRNA-Met, at 90,569 to 90,641 _RS02805 HMPREF1058_RS02800: HMPREF1058_RS02800 - TetR/AcrR family transcriptional regulator, at 90,873 to 91,472 _RS02800 HMPREF1058_RS02795: HMPREF1058_RS02795 - 3-oxoacyl-[acyl-carrier-protein] reductase, at 91,504 to 92,250 _RS02795 HMPREF1058_RS02790: HMPREF1058_RS02790 - RNA pseudouridine synthase, at 92,252 to 92,923 _RS02790 Position (kb) 90 91 92Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 90.026 kb on - strand, within HMPREF1058_RS02810at 90.026 kb on - strand, within HMPREF1058_RS02810at 90.076 kb on + strand, within HMPREF1058_RS02810at 90.092 kb on + strand, within HMPREF1058_RS02810at 90.093 kb on - strandat 90.099 kb on - strand, within HMPREF1058_RS02810at 90.114 kb on + strand, within HMPREF1058_RS02810at 90.127 kb on + strand, within HMPREF1058_RS02810at 90.127 kb on + strand, within HMPREF1058_RS02810at 90.189 kb on - strandat 90.202 kb on + strandat 90.203 kb on - strandat 90.267 kb on - strandat 90.348 kb on - strandat 90.354 kb on - strandat 90.354 kb on - strandat 90.370 kb on + strandat 90.467 kb on - strandat 90.487 kb on + strandat 90.753 kb on + strandat 90.797 kb on - strandat 90.816 kb on + strandat 90.847 kb on + strandat 90.849 kb on + strandat 90.870 kb on + strandat 90.962 kb on + strand, within HMPREF1058_RS02800at 90.999 kb on + strand, within HMPREF1058_RS02800at 91.001 kb on + strand, within HMPREF1058_RS02800at 91.001 kb on + strand, within HMPREF1058_RS02800at 91.001 kb on + strand, within HMPREF1058_RS02800at 91.029 kb on + strand, within HMPREF1058_RS02800at 91.202 kb on + strand, within HMPREF1058_RS02800at 91.202 kb on + strand, within HMPREF1058_RS02800at 91.202 kb on + strand, within HMPREF1058_RS02800at 91.202 kb on + strand, within HMPREF1058_RS02800at 91.204 kb on + strand, within HMPREF1058_RS02800at 91.338 kb on + strand, within HMPREF1058_RS02800at 91.338 kb on + strand, within HMPREF1058_RS02800at 91.365 kb on + strand, within HMPREF1058_RS02800at 91.365 kb on + strand, within HMPREF1058_RS02800at 91.369 kb on + strand, within HMPREF1058_RS02800at 91.416 kb on + strandat 92.248 kb on + strandat 92.248 kb on + strandat 92.248 kb on + strandat 92.251 kb on + strandat 92.256 kb on + strandat 92.256 kb on + strandat 92.256 kb on + strandat 92.257 kb on - strandat 92.257 kb on - strandat 92.264 kb on + strandat 92.279 kb on - strandat 92.378 kb on + strand, within HMPREF1058_RS02790at 92.378 kb on + strand, within HMPREF1058_RS02790at 92.378 kb on + strand, within HMPREF1058_RS02790at 92.379 kb on - strand, within HMPREF1058_RS02790at 92.379 kb on - strand, within HMPREF1058_RS02790

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Per-strain Table

Position Strand Gene LocusTag Fraction Arabinoxylan (Rye Flour) 2.5 mg/ml (C)
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90,026 - HMPREF1058_RS02810 0.65 +0.1
90,026 - HMPREF1058_RS02810 0.65 -0.8
90,076 + HMPREF1058_RS02810 0.74 -3.0
90,092 + HMPREF1058_RS02810 0.76 +0.0
90,093 - -1.3
90,099 - HMPREF1058_RS02810 0.78 -0.9
90,114 + HMPREF1058_RS02810 0.80 -0.3
90,127 + HMPREF1058_RS02810 0.82 +0.2
90,127 + HMPREF1058_RS02810 0.82 +0.8
90,189 - -1.8
90,202 + +1.0
90,203 - +1.8
90,267 - -1.1
90,348 - -1.3
90,354 - +1.6
90,354 - -1.5
90,370 + +0.8
90,467 - +2.0
90,487 + +0.4
90,753 + -3.1
90,797 - +0.5
90,816 + -2.5
90,847 + -0.5
90,849 + +0.1
90,870 + -2.6
90,962 + HMPREF1058_RS02800 0.15 -0.7
90,999 + HMPREF1058_RS02800 0.21 -2.6
91,001 + HMPREF1058_RS02800 0.21 -2.2
91,001 + HMPREF1058_RS02800 0.21 -1.3
91,001 + HMPREF1058_RS02800 0.21 +0.6
91,029 + HMPREF1058_RS02800 0.26 +2.6
91,202 + HMPREF1058_RS02800 0.55 -1.8
91,202 + HMPREF1058_RS02800 0.55 -2.2
91,202 + HMPREF1058_RS02800 0.55 -0.8
91,202 + HMPREF1058_RS02800 0.55 -0.7
91,204 + HMPREF1058_RS02800 0.55 -2.6
91,338 + HMPREF1058_RS02800 0.78 -2.2
91,338 + HMPREF1058_RS02800 0.78 -2.3
91,365 + HMPREF1058_RS02800 0.82 +1.4
91,365 + HMPREF1058_RS02800 0.82 -2.1
91,369 + HMPREF1058_RS02800 0.83 +0.5
91,416 + +1.1
92,248 + +0.5
92,248 + +0.0
92,248 + +0.2
92,251 + +0.5
92,256 + +0.4
92,256 + +0.6
92,256 + +1.7
92,257 - -0.6
92,257 - -0.0
92,264 + +0.1
92,279 - +0.3
92,378 + HMPREF1058_RS02790 0.19 +0.4
92,378 + HMPREF1058_RS02790 0.19 +0.6
92,378 + HMPREF1058_RS02790 0.19 +0.3
92,379 - HMPREF1058_RS02790 0.19 -0.7
92,379 - HMPREF1058_RS02790 0.19 -0.3

Or see this region's nucleotide sequence