Strain Fitness in Bifidobacterium breve UCC2003 around BBR_RS13650

Experiment: cage3; mouse1; day3; diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs

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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 ntBBR_RS13640 and BBR_RS13645 are separated by 36 nucleotidesBBR_RS13645 and BBR_RS13650 are separated by 33 nucleotidesBBR_RS13650 and BBR_RS13655 are separated by 124 nucleotidesBBR_RS13655 and BBR_RS13660 are separated by 207 nucleotides BBR_RS13640: BBR_RS13640 - orotidine-5'-phosphate decarboxylase, at 834,525 to 835,445 _RS13640 BBR_RS13645: BBR_RS13645 - guanylate kinase, at 835,482 to 836,072 _RS13645 BBR_RS13650: BBR_RS13650 - 3'-5' exonuclease, at 836,106 to 836,813 _RS13650 BBR_RS13655: BBR_RS13655 - hypothetical protein, at 836,938 to 837,369 _RS13655 BBR_RS13660: BBR_RS13660 - GTP-binding protein, at 837,577 to 839,763 _RS13660 Position (kb) 836 837Strain fitness (log2 ratio) -2 -1 0 1 2 3at 835.121 kb on + strand, within BBR_RS13640at 835.141 kb on + strand, within BBR_RS13640at 835.156 kb on + strand, within BBR_RS13640at 835.174 kb on + strand, within BBR_RS13640at 835.200 kb on + strand, within BBR_RS13640at 835.281 kb on + strand, within BBR_RS13640at 835.448 kb on - strandat 835.493 kb on + strandat 836.057 kb on + strandat 836.109 kb on + strandat 836.117 kb on - strandat 836.130 kb on + strandat 836.148 kb on + strandat 836.148 kb on + strandat 836.156 kb on - strandat 836.156 kb on - strandat 836.165 kb on + strandat 836.165 kb on + strandat 836.243 kb on - strand, within BBR_RS13650at 836.270 kb on - strand, within BBR_RS13650at 836.272 kb on - strand, within BBR_RS13650at 836.276 kb on + strand, within BBR_RS13650at 836.324 kb on + strand, within BBR_RS13650at 836.324 kb on + strand, within BBR_RS13650at 836.339 kb on - strand, within BBR_RS13650at 836.409 kb on - strand, within BBR_RS13650at 836.466 kb on - strand, within BBR_RS13650at 836.521 kb on + strand, within BBR_RS13650at 836.522 kb on + strand, within BBR_RS13650at 836.522 kb on + strand, within BBR_RS13650at 836.639 kb on + strand, within BBR_RS13650at 836.661 kb on - strand, within BBR_RS13650at 836.710 kb on + strand, within BBR_RS13650at 836.869 kb on - strandat 836.898 kb on + strandat 836.898 kb on + strandat 836.898 kb on + strandat 836.941 kb on + strandat 836.951 kb on - strandat 836.975 kb on - strandat 837.002 kb on - strand, within BBR_RS13655at 837.045 kb on + strand, within BBR_RS13655at 837.053 kb on - strand, within BBR_RS13655at 837.053 kb on - strand, within BBR_RS13655at 837.082 kb on + strand, within BBR_RS13655at 837.110 kb on - strand, within BBR_RS13655at 837.148 kb on - strand, within BBR_RS13655at 837.167 kb on - strand, within BBR_RS13655at 837.172 kb on - strand, within BBR_RS13655at 837.200 kb on + strand, within BBR_RS13655at 837.226 kb on + strand, within BBR_RS13655at 837.226 kb on + strand, within BBR_RS13655at 837.240 kb on - strand, within BBR_RS13655at 837.242 kb on + strand, within BBR_RS13655at 837.242 kb on + strand, within BBR_RS13655at 837.242 kb on + strand, within BBR_RS13655at 837.242 kb on + strand, within BBR_RS13655at 837.247 kb on + strand, within BBR_RS13655at 837.247 kb on + strand, within BBR_RS13655at 837.260 kb on - strand, within BBR_RS13655at 837.266 kb on + strand, within BBR_RS13655at 837.271 kb on + strand, within BBR_RS13655at 837.293 kb on + strand, within BBR_RS13655at 837.293 kb on + strand, within BBR_RS13655at 837.301 kb on - strand, within BBR_RS13655at 837.302 kb on + strand, within BBR_RS13655at 837.318 kb on - strand, within BBR_RS13655at 837.325 kb on - strand, within BBR_RS13655at 837.353 kb on - strandat 837.353 kb on - strandat 837.489 kb on + strandat 837.498 kb on - strandat 837.569 kb on + strandat 837.569 kb on + strandat 837.627 kb on - strandat 837.633 kb on + strandat 837.633 kb on + strandat 837.633 kb on + strandat 837.641 kb on - strandat 837.658 kb on + strandat 837.680 kb on + strandat 837.680 kb on + strandat 837.685 kb on + strandat 837.688 kb on - strandat 837.691 kb on + strandat 837.727 kb on + strandat 837.800 kb on + strand, within BBR_RS13660

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Per-strain Table

Position Strand Gene LocusTag Fraction cage3; mouse1; day3; diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs
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835,121 + BBR_RS13640 0.65 -0.5
835,141 + BBR_RS13640 0.67 +0.1
835,156 + BBR_RS13640 0.69 -0.3
835,174 + BBR_RS13640 0.70 -0.1
835,200 + BBR_RS13640 0.73 -1.0
835,281 + BBR_RS13640 0.82 +0.1
835,448 - +1.5
835,493 + -2.6
836,057 + -0.7
836,109 + -0.4
836,117 - +1.7
836,130 + +1.6
836,148 + -0.2
836,148 + +0.6
836,156 - +0.5
836,156 - +0.4
836,165 + +0.1
836,165 + +0.9
836,243 - BBR_RS13650 0.19 -0.0
836,270 - BBR_RS13650 0.23 -0.5
836,272 - BBR_RS13650 0.23 +0.9
836,276 + BBR_RS13650 0.24 +0.5
836,324 + BBR_RS13650 0.31 +0.9
836,324 + BBR_RS13650 0.31 +1.1
836,339 - BBR_RS13650 0.33 +0.6
836,409 - BBR_RS13650 0.43 -1.2
836,466 - BBR_RS13650 0.51 -0.6
836,521 + BBR_RS13650 0.59 -0.7
836,522 + BBR_RS13650 0.59 +0.7
836,522 + BBR_RS13650 0.59 -0.0
836,639 + BBR_RS13650 0.75 -0.2
836,661 - BBR_RS13650 0.78 +0.7
836,710 + BBR_RS13650 0.85 +1.0
836,869 - -1.5
836,898 + +0.6
836,898 + +2.9
836,898 + -1.7
836,941 + -0.6
836,951 - +0.2
836,975 - +0.3
837,002 - BBR_RS13655 0.15 -0.4
837,045 + BBR_RS13655 0.25 -0.5
837,053 - BBR_RS13655 0.27 -0.7
837,053 - BBR_RS13655 0.27 -1.1
837,082 + BBR_RS13655 0.33 +1.2
837,110 - BBR_RS13655 0.40 +0.8
837,148 - BBR_RS13655 0.49 +0.2
837,167 - BBR_RS13655 0.53 +1.0
837,172 - BBR_RS13655 0.54 -0.3
837,200 + BBR_RS13655 0.61 -0.1
837,226 + BBR_RS13655 0.67 +0.3
837,226 + BBR_RS13655 0.67 -0.7
837,240 - BBR_RS13655 0.70 +0.4
837,242 + BBR_RS13655 0.70 +0.3
837,242 + BBR_RS13655 0.70 +0.8
837,242 + BBR_RS13655 0.70 -0.6
837,242 + BBR_RS13655 0.70 +1.2
837,247 + BBR_RS13655 0.72 +0.8
837,247 + BBR_RS13655 0.72 +1.5
837,260 - BBR_RS13655 0.75 +0.1
837,266 + BBR_RS13655 0.76 +0.3
837,271 + BBR_RS13655 0.77 +0.9
837,293 + BBR_RS13655 0.82 +0.5
837,293 + BBR_RS13655 0.82 -1.8
837,301 - BBR_RS13655 0.84 -0.3
837,302 + BBR_RS13655 0.84 -0.1
837,318 - BBR_RS13655 0.88 +0.9
837,325 - BBR_RS13655 0.90 +0.8
837,353 - +1.2
837,353 - +1.7
837,489 + -0.8
837,498 - -0.1
837,569 + +1.2
837,569 + -1.3
837,627 - +0.3
837,633 + -0.1
837,633 + -0.7
837,633 + +1.5
837,641 - -2.1
837,658 + +0.6
837,680 + +0.4
837,680 + +1.2
837,685 + +0.6
837,688 - +1.4
837,691 + +1.1
837,727 + -0.1
837,800 + BBR_RS13660 0.10 -1.2

Or see this region's nucleotide sequence