Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS21600

Experiment: Columbia 1x (C) complex media

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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_RS13285 and HMPREF1058_RS13280 are separated by 1 nucleotidesHMPREF1058_RS13280 and HMPREF1058_RS21600 overlap by 18 nucleotidesHMPREF1058_RS21600 and HMPREF1058_RS13275 are separated by 290 nucleotides HMPREF1058_RS13285: HMPREF1058_RS13285 - glycoside hydrolase family 88 protein, at 1,537,656 to 1,538,882 _RS13285 HMPREF1058_RS13280: HMPREF1058_RS13280 - ATP-binding protein, at 1,538,884 to 1,539,126 _RS13280 HMPREF1058_RS21600: HMPREF1058_RS21600 - histidine kinase, at 1,539,109 to 1,539,270 _RS21600 HMPREF1058_RS13275: HMPREF1058_RS13275 - glycoside hydrolase family 28 protein, at 1,539,561 to 1,540,967 _RS13275 Position (kb) 1539 1540Strain fitness (log2 ratio) -2 -1 0 1 2at 1538.110 kb on + strand, within HMPREF1058_RS13285at 1538.111 kb on - strand, within HMPREF1058_RS13285at 1538.114 kb on + strand, within HMPREF1058_RS13285at 1538.211 kb on - strand, within HMPREF1058_RS13285at 1538.211 kb on - strand, within HMPREF1058_RS13285at 1538.213 kb on + strand, within HMPREF1058_RS13285at 1538.214 kb on - strand, within HMPREF1058_RS13285at 1538.233 kb on + strand, within HMPREF1058_RS13285at 1538.246 kb on + strand, within HMPREF1058_RS13285at 1538.246 kb on + strand, within HMPREF1058_RS13285at 1538.276 kb on + strand, within HMPREF1058_RS13285at 1538.276 kb on + strand, within HMPREF1058_RS13285at 1538.278 kb on + strand, within HMPREF1058_RS13285at 1538.352 kb on + strand, within HMPREF1058_RS13285at 1538.352 kb on + strandat 1538.355 kb on - strand, within HMPREF1058_RS13285at 1538.621 kb on + strand, within HMPREF1058_RS13285at 1538.623 kb on + strand, within HMPREF1058_RS13285at 1538.685 kb on + strand, within HMPREF1058_RS13285at 1538.699 kb on + strand, within HMPREF1058_RS13285at 1538.700 kb on - strand, within HMPREF1058_RS13285at 1538.711 kb on - strand, within HMPREF1058_RS13285at 1538.800 kb on + strandat 1538.801 kb on - strandat 1538.801 kb on - strandat 1538.827 kb on - strandat 1538.880 kb on + strandat 1538.880 kb on + strandat 1538.881 kb on - strandat 1538.887 kb on + strandat 1538.887 kb on + strandat 1538.968 kb on - strand, within HMPREF1058_RS13280at 1538.968 kb on - strand, within HMPREF1058_RS13280at 1539.001 kb on + strand, within HMPREF1058_RS13280at 1539.001 kb on + strand, within HMPREF1058_RS13280at 1539.049 kb on + strand, within HMPREF1058_RS13280at 1539.122 kb on - strandat 1539.126 kb on + strandat 1539.159 kb on + strand, within HMPREF1058_RS21600at 1539.203 kb on + strand, within HMPREF1058_RS21600at 1539.215 kb on - strand, within HMPREF1058_RS21600at 1539.215 kb on - strand, within HMPREF1058_RS21600at 1539.223 kb on - strand, within HMPREF1058_RS21600at 1539.268 kb on + strandat 1539.269 kb on - strandat 1539.275 kb on + strandat 1539.276 kb on - strandat 1539.276 kb on - strandat 1539.276 kb on - strandat 1539.277 kb on + strandat 1539.278 kb on - strandat 1539.278 kb on - strandat 1539.293 kb on - strandat 1539.304 kb on + strandat 1539.310 kb on + strandat 1539.352 kb on + strandat 1539.353 kb on - strandat 1539.356 kb on + strandat 1539.356 kb on + strandat 1539.357 kb on - strandat 1539.367 kb on + strandat 1539.367 kb on + strandat 1539.367 kb on + strandat 1539.378 kb on - strandat 1539.412 kb on + strandat 1539.438 kb on + strandat 1539.489 kb on + strandat 1539.490 kb on - strandat 1539.490 kb on - strandat 1539.491 kb on + strandat 1539.492 kb on - strandat 1539.574 kb on + strandat 1539.578 kb on + strandat 1539.591 kb on - strandat 1539.592 kb on + strandat 1539.601 kb on - strandat 1539.625 kb on + strandat 1539.746 kb on - strand, within HMPREF1058_RS13275at 1539.746 kb on - strand, within HMPREF1058_RS13275at 1539.770 kb on - strand, within HMPREF1058_RS13275at 1539.913 kb on - strand, within HMPREF1058_RS13275at 1539.917 kb on - strand, within HMPREF1058_RS13275at 1539.920 kb on + strand, within HMPREF1058_RS13275at 1539.921 kb on - strand, within HMPREF1058_RS13275at 1539.953 kb on - strand, within HMPREF1058_RS13275at 1539.982 kb on - strand, within HMPREF1058_RS13275at 1540.043 kb on + strand, within HMPREF1058_RS13275at 1540.050 kb on - strand, within HMPREF1058_RS13275at 1540.061 kb on + strand, within HMPREF1058_RS13275at 1540.062 kb on - strand, within HMPREF1058_RS13275at 1540.098 kb on - strand, within HMPREF1058_RS13275at 1540.098 kb on - strand, within HMPREF1058_RS13275at 1540.132 kb on + strand, within HMPREF1058_RS13275at 1540.166 kb on + strand, within HMPREF1058_RS13275at 1540.208 kb on + strand, within HMPREF1058_RS13275at 1540.216 kb on + strand, within HMPREF1058_RS13275at 1540.217 kb on - strand, within HMPREF1058_RS13275at 1540.217 kb on - strand, within HMPREF1058_RS13275at 1540.217 kb on - strand, within HMPREF1058_RS13275at 1540.249 kb on + strand, within HMPREF1058_RS13275

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Per-strain Table

Position Strand Gene LocusTag Fraction Columbia 1x (C) complex media
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1,538,110 + HMPREF1058_RS13285 0.37 +0.4
1,538,111 - HMPREF1058_RS13285 0.37 -0.8
1,538,114 + HMPREF1058_RS13285 0.37 +0.0
1,538,211 - HMPREF1058_RS13285 0.45 -0.1
1,538,211 - HMPREF1058_RS13285 0.45 +0.5
1,538,213 + HMPREF1058_RS13285 0.45 -0.3
1,538,214 - HMPREF1058_RS13285 0.45 +0.1
1,538,233 + HMPREF1058_RS13285 0.47 +0.5
1,538,246 + HMPREF1058_RS13285 0.48 -0.1
1,538,246 + HMPREF1058_RS13285 0.48 +0.4
1,538,276 + HMPREF1058_RS13285 0.51 -0.4
1,538,276 + HMPREF1058_RS13285 0.51 +0.2
1,538,278 + HMPREF1058_RS13285 0.51 -0.2
1,538,352 + HMPREF1058_RS13285 0.57 -0.3
1,538,352 + -0.8
1,538,355 - HMPREF1058_RS13285 0.57 -0.5
1,538,621 + HMPREF1058_RS13285 0.79 -0.4
1,538,623 + HMPREF1058_RS13285 0.79 -0.1
1,538,685 + HMPREF1058_RS13285 0.84 -0.2
1,538,699 + HMPREF1058_RS13285 0.85 +0.3
1,538,700 - HMPREF1058_RS13285 0.85 +2.0
1,538,711 - HMPREF1058_RS13285 0.86 -0.2
1,538,800 + +0.2
1,538,801 - -0.4
1,538,801 - +0.4
1,538,827 - -0.1
1,538,880 + +0.0
1,538,880 + -0.2
1,538,881 - -0.1
1,538,887 + +1.1
1,538,887 + -0.3
1,538,968 - HMPREF1058_RS13280 0.35 +0.3
1,538,968 - HMPREF1058_RS13280 0.35 -0.1
1,539,001 + HMPREF1058_RS13280 0.48 -1.6
1,539,001 + HMPREF1058_RS13280 0.48 -0.3
1,539,049 + HMPREF1058_RS13280 0.68 +1.2
1,539,122 - +0.8
1,539,126 + -0.8
1,539,159 + HMPREF1058_RS21600 0.31 -0.6
1,539,203 + HMPREF1058_RS21600 0.58 -0.2
1,539,215 - HMPREF1058_RS21600 0.65 -0.9
1,539,215 - HMPREF1058_RS21600 0.65 -0.4
1,539,223 - HMPREF1058_RS21600 0.70 -0.5
1,539,268 + -0.3
1,539,269 - -1.2
1,539,275 + -1.1
1,539,276 - +0.9
1,539,276 - +0.0
1,539,276 - +1.0
1,539,277 + +0.1
1,539,278 - +0.0
1,539,278 - -0.1
1,539,293 - +0.2
1,539,304 + -0.2
1,539,310 + +1.0
1,539,352 + -0.4
1,539,353 - -0.2
1,539,356 + +0.9
1,539,356 + -0.3
1,539,357 - +0.0
1,539,367 + +0.1
1,539,367 + +1.8
1,539,367 + +0.2
1,539,378 - -0.5
1,539,412 + -0.0
1,539,438 + -0.5
1,539,489 + -0.8
1,539,490 - -0.7
1,539,490 - -0.4
1,539,491 + -0.3
1,539,492 - +0.1
1,539,574 + +0.3
1,539,578 + +0.1
1,539,591 - -0.1
1,539,592 + -0.6
1,539,601 - -0.3
1,539,625 + -0.2
1,539,746 - HMPREF1058_RS13275 0.13 -0.8
1,539,746 - HMPREF1058_RS13275 0.13 -0.6
1,539,770 - HMPREF1058_RS13275 0.15 +1.4
1,539,913 - HMPREF1058_RS13275 0.25 +0.1
1,539,917 - HMPREF1058_RS13275 0.25 -0.1
1,539,920 + HMPREF1058_RS13275 0.26 -0.4
1,539,921 - HMPREF1058_RS13275 0.26 -0.5
1,539,953 - HMPREF1058_RS13275 0.28 -0.4
1,539,982 - HMPREF1058_RS13275 0.30 +0.8
1,540,043 + HMPREF1058_RS13275 0.34 -0.0
1,540,050 - HMPREF1058_RS13275 0.35 +0.0
1,540,061 + HMPREF1058_RS13275 0.36 +1.6
1,540,062 - HMPREF1058_RS13275 0.36 -0.3
1,540,098 - HMPREF1058_RS13275 0.38 -0.8
1,540,098 - HMPREF1058_RS13275 0.38 +0.2
1,540,132 + HMPREF1058_RS13275 0.41 -2.7
1,540,166 + HMPREF1058_RS13275 0.43 +0.4
1,540,208 + HMPREF1058_RS13275 0.46 -0.5
1,540,216 + HMPREF1058_RS13275 0.47 -0.1
1,540,217 - HMPREF1058_RS13275 0.47 +0.1
1,540,217 - HMPREF1058_RS13275 0.47 -0.2
1,540,217 - HMPREF1058_RS13275 0.47 +0.5
1,540,249 + HMPREF1058_RS13275 0.49 +0.3

Or see this region's nucleotide sequence