Strain Fitness in Bifidobacterium breve UCC2003 around BBR_RS15815

Experiment: cage1; mouse1; day3; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482

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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_RS15810 and BBR_RS15815 are separated by 22 nucleotidesBBR_RS15815 and BBR_RS15820 are separated by 199 nucleotides BBR_RS15810: BBR_RS15810 - tryptophan synthase subunit alpha, at 1,311,848 to 1,312,717 _RS15810 BBR_RS15815: BBR_RS15815 - tryptophan synthase subunit beta, at 1,312,740 to 1,314,827 _RS15815 BBR_RS15820: BBR_RS15820 - SOS response-associated peptidase, at 1,315,027 to 1,315,719 _RS15820 Position (kb) 1312 1313 1314 1315Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1311.741 kb on - strandat 1311.741 kb on - strandat 1311.844 kb on + strandat 1311.853 kb on - strandat 1311.877 kb on + strandat 1311.899 kb on - strandat 1311.910 kb on - strandat 1311.921 kb on - strandat 1311.930 kb on + strandat 1311.930 kb on + strandat 1311.952 kb on + strand, within BBR_RS15810at 1311.952 kb on + strand, within BBR_RS15810at 1311.954 kb on + strand, within BBR_RS15810at 1311.960 kb on - strand, within BBR_RS15810at 1311.960 kb on - strand, within BBR_RS15810at 1311.962 kb on - strand, within BBR_RS15810at 1311.972 kb on - strand, within BBR_RS15810at 1312.021 kb on - strand, within BBR_RS15810at 1312.061 kb on + strand, within BBR_RS15810at 1312.061 kb on + strand, within BBR_RS15810at 1312.069 kb on - strand, within BBR_RS15810at 1312.069 kb on - strand, within BBR_RS15810at 1312.093 kb on - strand, within BBR_RS15810at 1312.097 kb on + strand, within BBR_RS15810at 1312.098 kb on + strand, within BBR_RS15810at 1312.176 kb on + strand, within BBR_RS15810at 1312.184 kb on - strand, within BBR_RS15810at 1312.184 kb on - strand, within BBR_RS15810at 1312.198 kb on + strand, within BBR_RS15810at 1312.206 kb on - strand, within BBR_RS15810at 1312.206 kb on - strand, within BBR_RS15810at 1312.206 kb on - strand, within BBR_RS15810at 1312.206 kb on - strand, within BBR_RS15810at 1312.211 kb on - strand, within BBR_RS15810at 1312.253 kb on - strand, within BBR_RS15810at 1312.349 kb on - strand, within BBR_RS15810at 1312.357 kb on + strand, within BBR_RS15810at 1312.448 kb on - strand, within BBR_RS15810at 1312.484 kb on + strand, within BBR_RS15810at 1312.495 kb on + strand, within BBR_RS15810at 1312.500 kb on + strand, within BBR_RS15810at 1312.500 kb on + strand, within BBR_RS15810at 1312.503 kb on - strand, within BBR_RS15810at 1312.508 kb on - strand, within BBR_RS15810at 1312.508 kb on - strand, within BBR_RS15810at 1312.578 kb on - strand, within BBR_RS15810at 1312.578 kb on - strand, within BBR_RS15810at 1312.595 kb on - strand, within BBR_RS15810at 1312.634 kb on - strandat 1312.645 kb on - strandat 1312.762 kb on - strandat 1312.828 kb on + strandat 1312.874 kb on - strandat 1312.878 kb on + strandat 1312.878 kb on + strandat 1312.878 kb on + strandat 1312.899 kb on - strandat 1312.970 kb on + strand, within BBR_RS15815at 1312.970 kb on + strand, within BBR_RS15815at 1312.970 kb on + strand, within BBR_RS15815at 1312.970 kb on + strand, within BBR_RS15815at 1312.970 kb on + strand, within BBR_RS15815at 1312.974 kb on - strand, within BBR_RS15815at 1312.978 kb on - strand, within BBR_RS15815at 1312.978 kb on - strand, within BBR_RS15815at 1312.978 kb on - strand, within BBR_RS15815at 1312.996 kb on - strand, within BBR_RS15815at 1313.024 kb on - strand, within BBR_RS15815at 1313.038 kb on + strand, within BBR_RS15815at 1313.039 kb on - strand, within BBR_RS15815at 1313.052 kb on - strand, within BBR_RS15815at 1313.063 kb on - strand, within BBR_RS15815at 1313.076 kb on + strand, within BBR_RS15815at 1313.084 kb on - strand, within BBR_RS15815at 1313.084 kb on - strand, within BBR_RS15815at 1313.089 kb on - strand, within BBR_RS15815at 1313.089 kb on - strand, within BBR_RS15815at 1313.117 kb on - strand, within BBR_RS15815at 1313.147 kb on - strand, within BBR_RS15815at 1313.149 kb on + strand, within BBR_RS15815at 1313.149 kb on - strand, within BBR_RS15815at 1313.157 kb on - strand, within BBR_RS15815at 1313.157 kb on - strand, within BBR_RS15815at 1313.220 kb on + strand, within BBR_RS15815at 1313.251 kb on - strand, within BBR_RS15815at 1313.272 kb on - strand, within BBR_RS15815at 1313.310 kb on + strand, within BBR_RS15815at 1313.346 kb on + strand, within BBR_RS15815at 1313.449 kb on - strand, within BBR_RS15815at 1313.482 kb on + strand, within BBR_RS15815at 1313.483 kb on - strand, within BBR_RS15815at 1313.484 kb on - strand, within BBR_RS15815at 1313.534 kb on + strand, within BBR_RS15815at 1313.534 kb on + strand, within BBR_RS15815at 1313.542 kb on - strand, within BBR_RS15815at 1313.546 kb on + strand, within BBR_RS15815at 1313.594 kb on + strand, within BBR_RS15815at 1313.597 kb on - strand, within BBR_RS15815at 1313.607 kb on - strand, within BBR_RS15815at 1313.631 kb on + strand, within BBR_RS15815at 1313.636 kb on + strand, within BBR_RS15815at 1313.636 kb on + strand, within BBR_RS15815at 1313.644 kb on - strand, within BBR_RS15815at 1313.663 kb on - strand, within BBR_RS15815at 1313.668 kb on - strand, within BBR_RS15815at 1313.668 kb on - strand, within BBR_RS15815at 1313.710 kb on + strand, within BBR_RS15815at 1313.749 kb on - strand, within BBR_RS15815at 1313.765 kb on - strand, within BBR_RS15815at 1313.780 kb on + strand, within BBR_RS15815at 1313.788 kb on - strand, within BBR_RS15815at 1313.819 kb on - strand, within BBR_RS15815at 1313.868 kb on + strand, within BBR_RS15815at 1313.958 kb on - strand, within BBR_RS15815at 1313.989 kb on + strand, within BBR_RS15815at 1313.989 kb on + strand, within BBR_RS15815at 1313.994 kb on + strand, within BBR_RS15815at 1314.025 kb on + strand, within BBR_RS15815at 1314.041 kb on + strand, within BBR_RS15815at 1314.085 kb on - strand, within BBR_RS15815at 1314.096 kb on + strand, within BBR_RS15815at 1314.104 kb on - strand, within BBR_RS15815at 1314.111 kb on + strand, within BBR_RS15815at 1314.119 kb on - strand, within BBR_RS15815at 1314.121 kb on - strand, within BBR_RS15815at 1314.138 kb on + strand, within BBR_RS15815at 1314.138 kb on + strand, within BBR_RS15815at 1314.151 kb on + strand, within BBR_RS15815at 1314.151 kb on + strand, within BBR_RS15815at 1314.155 kb on + strand, within BBR_RS15815at 1314.241 kb on + strand, within BBR_RS15815at 1314.249 kb on - strand, within BBR_RS15815at 1314.281 kb on + strand, within BBR_RS15815at 1314.299 kb on - strand, within BBR_RS15815at 1314.336 kb on - strand, within BBR_RS15815at 1314.474 kb on + strand, within BBR_RS15815at 1314.493 kb on - strand, within BBR_RS15815at 1314.534 kb on + strand, within BBR_RS15815at 1314.595 kb on + strand, within BBR_RS15815at 1314.600 kb on + strand, within BBR_RS15815at 1314.622 kb on - strandat 1314.714 kb on + strandat 1314.739 kb on + strandat 1314.786 kb on + strandat 1314.870 kb on - strandat 1314.870 kb on - strandat 1314.886 kb on - strandat 1314.921 kb on - strandat 1315.069 kb on + strandat 1315.077 kb on - strandat 1315.094 kb on - strandat 1315.118 kb on - strand, within BBR_RS15820at 1315.120 kb on - strand, within BBR_RS15820at 1315.133 kb on + strand, within BBR_RS15820at 1315.168 kb on - strand, within BBR_RS15820at 1315.170 kb on + strand, within BBR_RS15820at 1315.170 kb on + strand, within BBR_RS15820at 1315.170 kb on + strand, within BBR_RS15820at 1315.178 kb on - strand, within BBR_RS15820at 1315.178 kb on - strand, within BBR_RS15820at 1315.178 kb on - strand, within BBR_RS15820at 1315.202 kb on + strand, within BBR_RS15820at 1315.235 kb on + strand, within BBR_RS15820at 1315.248 kb on - strand, within BBR_RS15820at 1315.264 kb on - strand, within BBR_RS15820at 1315.267 kb on + strand, within BBR_RS15820at 1315.267 kb on + strand, within BBR_RS15820at 1315.324 kb on + strand, within BBR_RS15820at 1315.337 kb on + strand, within BBR_RS15820at 1315.345 kb on - strand, within BBR_RS15820at 1315.404 kb on - strand, within BBR_RS15820at 1315.424 kb on - strand, within BBR_RS15820at 1315.534 kb on + strand, within BBR_RS15820at 1315.547 kb on - strand, within BBR_RS15820at 1315.659 kb on - strandat 1315.713 kb on + strandat 1315.721 kb on - strandat 1315.791 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction cage1; mouse1; day3; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482
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1,311,741 - +0.4
1,311,741 - +0.4
1,311,844 + +0.2
1,311,853 - -1.2
1,311,877 + -0.3
1,311,899 - -2.0
1,311,910 - -2.3
1,311,921 - +2.2
1,311,930 + -3.2
1,311,930 + -2.9
1,311,952 + BBR_RS15810 0.12 +1.2
1,311,952 + BBR_RS15810 0.12 +0.4
1,311,954 + BBR_RS15810 0.12 +0.7
1,311,960 - BBR_RS15810 0.13 -2.1
1,311,960 - BBR_RS15810 0.13 +1.7
1,311,962 - BBR_RS15810 0.13 +0.5
1,311,972 - BBR_RS15810 0.14 -0.7
1,312,021 - BBR_RS15810 0.20 +1.5
1,312,061 + BBR_RS15810 0.24 +0.2
1,312,061 + BBR_RS15810 0.24 +1.1
1,312,069 - BBR_RS15810 0.25 +0.4
1,312,069 - BBR_RS15810 0.25 -2.1
1,312,093 - BBR_RS15810 0.28 +1.1
1,312,097 + BBR_RS15810 0.29 +0.4
1,312,098 + BBR_RS15810 0.29 -1.3
1,312,176 + BBR_RS15810 0.38 -0.0
1,312,184 - BBR_RS15810 0.39 -0.8
1,312,184 - BBR_RS15810 0.39 +0.1
1,312,198 + BBR_RS15810 0.40 +0.3
1,312,206 - BBR_RS15810 0.41 +1.0
1,312,206 - BBR_RS15810 0.41 +0.2
1,312,206 - BBR_RS15810 0.41 +0.7
1,312,206 - BBR_RS15810 0.41 -0.7
1,312,211 - BBR_RS15810 0.42 -0.4
1,312,253 - BBR_RS15810 0.47 -2.3
1,312,349 - BBR_RS15810 0.58 +2.1
1,312,357 + BBR_RS15810 0.59 +2.3
1,312,448 - BBR_RS15810 0.69 +0.8
1,312,484 + BBR_RS15810 0.73 +0.6
1,312,495 + BBR_RS15810 0.74 -0.6
1,312,500 + BBR_RS15810 0.75 +0.3
1,312,500 + BBR_RS15810 0.75 +0.8
1,312,503 - BBR_RS15810 0.75 -0.4
1,312,508 - BBR_RS15810 0.76 -0.6
1,312,508 - BBR_RS15810 0.76 +1.1
1,312,578 - BBR_RS15810 0.84 +0.9
1,312,578 - BBR_RS15810 0.84 -2.2
1,312,595 - BBR_RS15810 0.86 +1.1
1,312,634 - +0.2
1,312,645 - -1.0
1,312,762 - +0.4
1,312,828 + +0.5
1,312,874 - -1.3
1,312,878 + +0.2
1,312,878 + +1.0
1,312,878 + +0.7
1,312,899 - -0.9
1,312,970 + BBR_RS15815 0.11 +0.1
1,312,970 + BBR_RS15815 0.11 -0.2
1,312,970 + BBR_RS15815 0.11 -0.9
1,312,970 + BBR_RS15815 0.11 +1.7
1,312,970 + BBR_RS15815 0.11 +0.7
1,312,974 - BBR_RS15815 0.11 -0.3
1,312,978 - BBR_RS15815 0.11 +0.4
1,312,978 - BBR_RS15815 0.11 +0.2
1,312,978 - BBR_RS15815 0.11 -0.6
1,312,996 - BBR_RS15815 0.12 -1.3
1,313,024 - BBR_RS15815 0.14 -0.5
1,313,038 + BBR_RS15815 0.14 +0.4
1,313,039 - BBR_RS15815 0.14 +0.1
1,313,052 - BBR_RS15815 0.15 +0.1
1,313,063 - BBR_RS15815 0.15 +0.3
1,313,076 + BBR_RS15815 0.16 -0.0
1,313,084 - BBR_RS15815 0.16 +0.6
1,313,084 - BBR_RS15815 0.16 +1.9
1,313,089 - BBR_RS15815 0.17 -0.1
1,313,089 - BBR_RS15815 0.17 +1.0
1,313,117 - BBR_RS15815 0.18 -0.0
1,313,147 - BBR_RS15815 0.19 -0.1
1,313,149 + BBR_RS15815 0.20 -0.2
1,313,149 - BBR_RS15815 0.20 +0.6
1,313,157 - BBR_RS15815 0.20 -0.2
1,313,157 - BBR_RS15815 0.20 -0.5
1,313,220 + BBR_RS15815 0.23 -0.5
1,313,251 - BBR_RS15815 0.24 -0.5
1,313,272 - BBR_RS15815 0.25 +1.5
1,313,310 + BBR_RS15815 0.27 -0.9
1,313,346 + BBR_RS15815 0.29 +0.7
1,313,449 - BBR_RS15815 0.34 -1.8
1,313,482 + BBR_RS15815 0.36 +0.9
1,313,483 - BBR_RS15815 0.36 +0.6
1,313,484 - BBR_RS15815 0.36 -1.7
1,313,534 + BBR_RS15815 0.38 -0.6
1,313,534 + BBR_RS15815 0.38 -1.0
1,313,542 - BBR_RS15815 0.38 -0.2
1,313,546 + BBR_RS15815 0.39 +0.0
1,313,594 + BBR_RS15815 0.41 +0.5
1,313,597 - BBR_RS15815 0.41 -0.6
1,313,607 - BBR_RS15815 0.42 +0.5
1,313,631 + BBR_RS15815 0.43 -0.8
1,313,636 + BBR_RS15815 0.43 +0.2
1,313,636 + BBR_RS15815 0.43 +0.1
1,313,644 - BBR_RS15815 0.43 +0.7
1,313,663 - BBR_RS15815 0.44 -0.7
1,313,668 - BBR_RS15815 0.44 -0.4
1,313,668 - BBR_RS15815 0.44 -0.3
1,313,710 + BBR_RS15815 0.46 +0.2
1,313,749 - BBR_RS15815 0.48 -1.2
1,313,765 - BBR_RS15815 0.49 +0.9
1,313,780 + BBR_RS15815 0.50 +0.6
1,313,788 - BBR_RS15815 0.50 +0.7
1,313,819 - BBR_RS15815 0.52 +0.2
1,313,868 + BBR_RS15815 0.54 -0.6
1,313,958 - BBR_RS15815 0.58 +1.2
1,313,989 + BBR_RS15815 0.60 +0.6
1,313,989 + BBR_RS15815 0.60 -0.1
1,313,994 + BBR_RS15815 0.60 +0.4
1,314,025 + BBR_RS15815 0.62 +0.7
1,314,041 + BBR_RS15815 0.62 +0.6
1,314,085 - BBR_RS15815 0.64 +0.7
1,314,096 + BBR_RS15815 0.65 -1.2
1,314,104 - BBR_RS15815 0.65 -0.2
1,314,111 + BBR_RS15815 0.66 -0.7
1,314,119 - BBR_RS15815 0.66 -0.4
1,314,121 - BBR_RS15815 0.66 -0.7
1,314,138 + BBR_RS15815 0.67 -0.1
1,314,138 + BBR_RS15815 0.67 -2.0
1,314,151 + BBR_RS15815 0.68 +1.5
1,314,151 + BBR_RS15815 0.68 -1.7
1,314,155 + BBR_RS15815 0.68 +0.4
1,314,241 + BBR_RS15815 0.72 -0.3
1,314,249 - BBR_RS15815 0.72 -0.6
1,314,281 + BBR_RS15815 0.74 -0.1
1,314,299 - BBR_RS15815 0.75 +0.6
1,314,336 - BBR_RS15815 0.76 +0.9
1,314,474 + BBR_RS15815 0.83 +0.1
1,314,493 - BBR_RS15815 0.84 -1.6
1,314,534 + BBR_RS15815 0.86 +0.3
1,314,595 + BBR_RS15815 0.89 -0.8
1,314,600 + BBR_RS15815 0.89 +0.2
1,314,622 - +0.9
1,314,714 + -0.4
1,314,739 + +0.2
1,314,786 + -0.8
1,314,870 - +1.8
1,314,870 - -0.1
1,314,886 - +0.8
1,314,921 - -0.1
1,315,069 + -0.4
1,315,077 - -0.0
1,315,094 - +1.2
1,315,118 - BBR_RS15820 0.13 +0.3
1,315,120 - BBR_RS15820 0.13 -0.7
1,315,133 + BBR_RS15820 0.15 +0.5
1,315,168 - BBR_RS15820 0.20 -0.5
1,315,170 + BBR_RS15820 0.21 +1.9
1,315,170 + BBR_RS15820 0.21 -1.0
1,315,170 + BBR_RS15820 0.21 +0.6
1,315,178 - BBR_RS15820 0.22 +0.4
1,315,178 - BBR_RS15820 0.22 +0.5
1,315,178 - BBR_RS15820 0.22 -0.6
1,315,202 + BBR_RS15820 0.25 -1.6
1,315,235 + BBR_RS15820 0.30 -0.4
1,315,248 - BBR_RS15820 0.32 -0.6
1,315,264 - BBR_RS15820 0.34 +0.2
1,315,267 + BBR_RS15820 0.35 -1.0
1,315,267 + BBR_RS15820 0.35 +0.1
1,315,324 + BBR_RS15820 0.43 -2.5
1,315,337 + BBR_RS15820 0.45 +0.1
1,315,345 - BBR_RS15820 0.46 -0.4
1,315,404 - BBR_RS15820 0.54 +0.3
1,315,424 - BBR_RS15820 0.57 -0.1
1,315,534 + BBR_RS15820 0.73 +0.8
1,315,547 - BBR_RS15820 0.75 -0.8
1,315,659 - -0.1
1,315,713 + +0.7
1,315,721 - +0.2
1,315,791 - -0.4

Or see this region's nucleotide sequence