Strain Fitness in Pseudomonas syringae pv. syringae B728a around Psyr_1187

Experiment: KB with Chloramphenicol 12.5 ug/ml

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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 ntPsyr_1186 and Psyr_1187 are separated by 97 nucleotidesPsyr_1187 and Psyr_1188 are separated by 62 nucleotides Psyr_1186: Psyr_1186 - type III effector HopM1, at 1,340,413 to 1,342,569 _1186 Psyr_1187: Psyr_1187 - type III chaperone protein ShcE, at 1,342,667 to 1,343,056 _1187 Psyr_1188: Psyr_1188 - type III effector protein AvrE1, at 1,343,119 to 1,348,479 _1188 Position (kb) 1342 1343 1344Strain fitness (log2 ratio) -2 -1 0 1 2 3at 1341.907 kb on + strand, within Psyr_1186at 1341.907 kb on + strand, within Psyr_1186at 1341.907 kb on + strand, within Psyr_1186at 1341.907 kb on + strand, within Psyr_1186at 1341.907 kb on + strand, within Psyr_1186at 1341.907 kb on + strand, within Psyr_1186at 1341.907 kb on + strand, within Psyr_1186at 1341.908 kb on - strand, within Psyr_1186at 1341.908 kb on - strand, within Psyr_1186at 1341.908 kb on - strand, within Psyr_1186at 1341.908 kb on - strand, within Psyr_1186at 1341.908 kb on - strand, within Psyr_1186at 1341.908 kb on - strand, within Psyr_1186at 1341.908 kb on - strand, within Psyr_1186at 1341.908 kb on - strand, within Psyr_1186at 1342.027 kb on + strand, within Psyr_1186at 1342.132 kb on - strand, within Psyr_1186at 1342.174 kb on + strand, within Psyr_1186at 1342.174 kb on + strand, within Psyr_1186at 1342.174 kb on + strand, within Psyr_1186at 1342.175 kb on - strand, within Psyr_1186at 1342.175 kb on - strand, within Psyr_1186at 1342.175 kb on - strand, within Psyr_1186at 1342.175 kb on - strand, within Psyr_1186at 1342.175 kb on - strand, within Psyr_1186at 1342.175 kb on - strand, within Psyr_1186at 1342.190 kb on - strand, within Psyr_1186at 1342.190 kb on - strand, within Psyr_1186at 1342.190 kb on - strand, within Psyr_1186at 1342.190 kb on - strand, within Psyr_1186at 1342.262 kb on + strand, within Psyr_1186at 1342.262 kb on + strand, within Psyr_1186at 1342.263 kb on - strand, within Psyr_1186at 1342.263 kb on - strand, within Psyr_1186at 1342.323 kb on + strand, within Psyr_1186at 1342.323 kb on + strand, within Psyr_1186at 1342.323 kb on + strand, within Psyr_1186at 1342.324 kb on - strand, within Psyr_1186at 1342.324 kb on - strand, within Psyr_1186at 1342.324 kb on - strand, within Psyr_1186at 1342.324 kb on - strand, within Psyr_1186at 1342.324 kb on - strand, within Psyr_1186at 1342.324 kb on - strand, within Psyr_1186at 1342.324 kb on - strand, within Psyr_1186at 1342.324 kb on - strand, within Psyr_1186at 1342.324 kb on - strand, within Psyr_1186at 1342.375 kb on + strandat 1342.403 kb on + strandat 1342.452 kb on - strandat 1342.452 kb on - strandat 1342.452 kb on - strandat 1342.485 kb on + strandat 1342.485 kb on + strandat 1342.485 kb on + strandat 1342.486 kb on - strandat 1342.486 kb on - strandat 1342.658 kb on - strandat 1342.660 kb on + strandat 1342.661 kb on - strandat 1342.661 kb on - strandat 1342.661 kb on - strandat 1342.661 kb on - strandat 1342.673 kb on - strandat 1342.673 kb on - strandat 1342.673 kb on - strandat 1342.735 kb on + strand, within Psyr_1187at 1342.763 kb on + strand, within Psyr_1187at 1342.764 kb on - strand, within Psyr_1187at 1342.764 kb on - strand, within Psyr_1187at 1342.764 kb on - strand, within Psyr_1187at 1342.764 kb on - strand, within Psyr_1187at 1343.015 kb on - strand, within Psyr_1187at 1343.118 kb on - strandat 1343.240 kb on + strandat 1343.240 kb on + strandat 1343.241 kb on - strandat 1343.241 kb on - strandat 1343.241 kb on - strandat 1343.241 kb on - strandat 1343.297 kb on + strandat 1343.297 kb on + strandat 1343.297 kb on + strandat 1343.297 kb on + strandat 1343.297 kb on + strandat 1343.298 kb on - strandat 1343.298 kb on - strandat 1343.298 kb on - strandat 1343.553 kb on + strandat 1343.553 kb on + strandat 1343.553 kb on + strandat 1343.553 kb on + strandat 1343.553 kb on + strandat 1343.554 kb on - strandat 1343.554 kb on - strandat 1343.554 kb on - strandat 1343.554 kb on - strandat 1343.554 kb on - strandat 1343.554 kb on - strandat 1343.555 kb on + strandat 1343.555 kb on + strandat 1343.555 kb on + strandat 1343.555 kb on + strandat 1343.555 kb on + strandat 1343.555 kb on + strandat 1343.555 kb on + strandat 1343.555 kb on + strandat 1343.555 kb on + strandat 1343.556 kb on - strandat 1343.556 kb on - strandat 1343.556 kb on - strandat 1343.556 kb on - strandat 1343.556 kb on - strandat 1343.556 kb on - strandat 1343.556 kb on - strandat 1343.599 kb on + strandat 1343.625 kb on + strandat 1343.625 kb on + strandat 1343.625 kb on + strandat 1343.625 kb on + strandat 1343.626 kb on - strandat 1343.753 kb on + strand, within Psyr_1188at 1343.753 kb on + strand, within Psyr_1188at 1343.753 kb on + strand, within Psyr_1188at 1343.753 kb on + strand, within Psyr_1188at 1343.753 kb on + strand, within Psyr_1188at 1343.754 kb on - strand, within Psyr_1188at 1343.754 kb on - strand, within Psyr_1188at 1343.754 kb on - strand, within Psyr_1188at 1343.754 kb on - strand, within Psyr_1188at 1343.754 kb on - strand, within Psyr_1188at 1343.754 kb on - strand, within Psyr_1188at 1343.846 kb on + strand, within Psyr_1188at 1343.965 kb on + strand, within Psyr_1188at 1343.971 kb on - strand, within Psyr_1188at 1344.036 kb on + strand, within Psyr_1188

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Per-strain Table

Position Strand Gene LocusTag Fraction KB with Chloramphenicol 12.5 ug/ml
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1,341,907 + Psyr_1186 0.69 +0.0
1,341,907 + Psyr_1186 0.69 -1.3
1,341,907 + Psyr_1186 0.69 -0.4
1,341,907 + Psyr_1186 0.69 +0.2
1,341,907 + Psyr_1186 0.69 +0.6
1,341,907 + Psyr_1186 0.69 +0.3
1,341,907 + Psyr_1186 0.69 +0.0
1,341,908 - Psyr_1186 0.69 +1.4
1,341,908 - Psyr_1186 0.69 -0.1
1,341,908 - Psyr_1186 0.69 -0.5
1,341,908 - Psyr_1186 0.69 -0.2
1,341,908 - Psyr_1186 0.69 -1.1
1,341,908 - Psyr_1186 0.69 +0.8
1,341,908 - Psyr_1186 0.69 +0.8
1,341,908 - Psyr_1186 0.69 -0.7
1,342,027 + Psyr_1186 0.75 +0.2
1,342,132 - Psyr_1186 0.80 -0.8
1,342,174 + Psyr_1186 0.82 -1.2
1,342,174 + Psyr_1186 0.82 -0.2
1,342,174 + Psyr_1186 0.82 -0.6
1,342,175 - Psyr_1186 0.82 +1.2
1,342,175 - Psyr_1186 0.82 -1.5
1,342,175 - Psyr_1186 0.82 +0.8
1,342,175 - Psyr_1186 0.82 -0.2
1,342,175 - Psyr_1186 0.82 -0.6
1,342,175 - Psyr_1186 0.82 -1.0
1,342,190 - Psyr_1186 0.82 +0.7
1,342,190 - Psyr_1186 0.82 +0.1
1,342,190 - Psyr_1186 0.82 -0.3
1,342,190 - Psyr_1186 0.82 -0.8
1,342,262 + Psyr_1186 0.86 -0.3
1,342,262 + Psyr_1186 0.86 -0.6
1,342,263 - Psyr_1186 0.86 +0.8
1,342,263 - Psyr_1186 0.86 +0.8
1,342,323 + Psyr_1186 0.89 -0.2
1,342,323 + Psyr_1186 0.89 -1.3
1,342,323 + Psyr_1186 0.89 -0.4
1,342,324 - Psyr_1186 0.89 +1.0
1,342,324 - Psyr_1186 0.89 -0.2
1,342,324 - Psyr_1186 0.89 +0.0
1,342,324 - Psyr_1186 0.89 -0.7
1,342,324 - Psyr_1186 0.89 -0.2
1,342,324 - Psyr_1186 0.89 -0.7
1,342,324 - Psyr_1186 0.89 +1.6
1,342,324 - Psyr_1186 0.89 -0.2
1,342,324 - Psyr_1186 0.89 +0.6
1,342,375 + -1.1
1,342,403 + -0.7
1,342,452 - +0.4
1,342,452 - +0.6
1,342,452 - -1.0
1,342,485 + +0.2
1,342,485 + +1.1
1,342,485 + -0.3
1,342,486 - -0.3
1,342,486 - +0.5
1,342,658 - -0.2
1,342,660 + -0.7
1,342,661 - +0.8
1,342,661 - -0.3
1,342,661 - +0.4
1,342,661 - -0.0
1,342,673 - -0.6
1,342,673 - -0.4
1,342,673 - -0.3
1,342,735 + Psyr_1187 0.17 -0.5
1,342,763 + Psyr_1187 0.25 -1.7
1,342,764 - Psyr_1187 0.25 -0.7
1,342,764 - Psyr_1187 0.25 -1.7
1,342,764 - Psyr_1187 0.25 +0.6
1,342,764 - Psyr_1187 0.25 -0.2
1,343,015 - Psyr_1187 0.89 -0.7
1,343,118 - -0.4
1,343,240 + -1.1
1,343,240 + +0.3
1,343,241 - +0.3
1,343,241 - +0.1
1,343,241 - +0.5
1,343,241 - +1.6
1,343,297 + -0.2
1,343,297 + +0.3
1,343,297 + +0.3
1,343,297 + -0.4
1,343,297 + -0.9
1,343,298 - +0.2
1,343,298 - +0.4
1,343,298 - -0.0
1,343,553 + +0.5
1,343,553 + -0.2
1,343,553 + -0.6
1,343,553 + +1.3
1,343,553 + +0.2
1,343,554 - +0.1
1,343,554 - -1.7
1,343,554 - -1.7
1,343,554 - -0.7
1,343,554 - -1.0
1,343,554 - +0.0
1,343,555 + +0.5
1,343,555 + +0.7
1,343,555 + -1.9
1,343,555 + +0.2
1,343,555 + -0.7
1,343,555 + -0.4
1,343,555 + +0.2
1,343,555 + +1.1
1,343,555 + +2.8
1,343,556 - +0.5
1,343,556 - +1.6
1,343,556 - +0.5
1,343,556 - -0.2
1,343,556 - +0.1
1,343,556 - -1.6
1,343,556 - -0.2
1,343,599 + +1.8
1,343,625 + -0.3
1,343,625 + +0.3
1,343,625 + -1.2
1,343,625 + +1.8
1,343,626 - +0.4
1,343,753 + Psyr_1188 0.12 -0.3
1,343,753 + Psyr_1188 0.12 -0.9
1,343,753 + Psyr_1188 0.12 +0.7
1,343,753 + Psyr_1188 0.12 -0.3
1,343,753 + Psyr_1188 0.12 +1.3
1,343,754 - Psyr_1188 0.12 +0.1
1,343,754 - Psyr_1188 0.12 +0.7
1,343,754 - Psyr_1188 0.12 -1.2
1,343,754 - Psyr_1188 0.12 +0.4
1,343,754 - Psyr_1188 0.12 +0.2
1,343,754 - Psyr_1188 0.12 -0.2
1,343,846 + Psyr_1188 0.14 +0.1
1,343,965 + Psyr_1188 0.16 +1.0
1,343,971 - Psyr_1188 0.16 +0.1
1,344,036 + Psyr_1188 0.17 +1.6

Or see this region's nucleotide sequence