Strain Fitness in Shewanella oneidensis MR-1 around SO0107

Experiment: LB; anaerobic

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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 ntselB and tRNA-SeC(p)-1 overlap by 125 nucleotidestRNA-SeC(p)-1 and fdhD are separated by 141 nucleotidesfdhD and SO0108 are separated by 125 nucleotides SO0106: selB - selenocysteine-specific translation elongation factor (NCBI ptt file), at 115,656 to 117,677 selB SO_t002: tRNA-SeC(p)-1 - tRNA-Sec (RefSeq), at 117,553 to 117,643 tRNA-SeC(p)-1 SO0107: fdhD - formate dehydrogenase accessory protein FdhD (NCBI ptt file), at 117,785 to 118,621 fdhD SO0108: SO0108 - hypothetical transporter component (NCBI ptt file), at 118,747 to 119,961 SO0108 Position (kb) 117 118 119Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 116.790 kb on + strand, within selBat 116.832 kb on - strand, within selBat 117.006 kb on - strand, within selBat 117.026 kb on + strand, within selBat 117.081 kb on - strand, within selBat 117.117 kb on + strand, within selBat 117.134 kb on + strand, within selBat 117.152 kb on - strand, within selBat 117.159 kb on + strand, within selBat 117.274 kb on + strand, within selBat 117.274 kb on + strand, within selBat 117.274 kb on + strand, within selBat 117.282 kb on - strand, within selBat 117.317 kb on + strand, within selBat 117.349 kb on - strand, within selBat 117.394 kb on - strand, within selBat 117.400 kb on - strand, within selBat 117.407 kb on + strand, within selBat 117.430 kb on + strand, within selBat 117.576 kb on + strandat 117.576 kb on + strandat 117.576 kb on + strandat 117.576 kb on + strandat 117.584 kb on - strandat 117.601 kb on - strandat 117.628 kb on - strandat 117.679 kb on + strandat 117.895 kb on + strand, within fdhDat 117.901 kb on - strand, within fdhDat 117.970 kb on - strand, within fdhDat 118.039 kb on - strand, within fdhDat 118.080 kb on + strand, within fdhDat 118.119 kb on + strand, within fdhDat 118.127 kb on - strand, within fdhDat 118.147 kb on - strand, within fdhDat 118.152 kb on - strand, within fdhDat 118.228 kb on + strand, within fdhDat 118.248 kb on + strand, within fdhDat 118.256 kb on - strand, within fdhDat 118.256 kb on - strand, within fdhDat 118.256 kb on - strand, within fdhDat 118.292 kb on - strand, within fdhDat 118.311 kb on - strand, within fdhDat 118.328 kb on + strand, within fdhDat 118.333 kb on + strand, within fdhDat 118.430 kb on + strand, within fdhDat 118.519 kb on + strand, within fdhDat 118.526 kb on - strand, within fdhDat 118.564 kb on + strandat 118.635 kb on - strandat 118.644 kb on - strandat 118.865 kb on - strandat 118.947 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.969 kb on + strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 118.977 kb on - strand, within SO0108at 119.063 kb on - strand, within SO0108at 119.069 kb on + strand, within SO0108at 119.083 kb on + strand, within SO0108at 119.096 kb on - strand, within SO0108at 119.137 kb on + strand, within SO0108at 119.394 kb on - strand, within SO0108at 119.399 kb on + strand, within SO0108at 119.416 kb on + strand, within SO0108at 119.417 kb on - strand, within SO0108at 119.424 kb on - strand, within SO0108at 119.429 kb on - strand, within SO0108at 119.443 kb on - strand, within SO0108at 119.458 kb on + strand, within SO0108at 119.499 kb on - strand, within SO0108at 119.501 kb on - strand, within SO0108at 119.512 kb on + strand, within SO0108at 119.606 kb on - strand, within SO0108

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Per-strain Table

Position Strand Gene LocusTag Fraction LB; anaerobic
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116,790 + selB SO0106 0.56 +1.1
116,832 - selB SO0106 0.58 -0.5
117,006 - selB SO0106 0.67 +1.7
117,026 + selB SO0106 0.68 +0.2
117,081 - selB SO0106 0.70 +0.9
117,117 + selB SO0106 0.72 -1.4
117,134 + selB SO0106 0.73 -0.7
117,152 - selB SO0106 0.74 -2.1
117,159 + selB SO0106 0.74 -0.3
117,274 + selB SO0106 0.80 +0.2
117,274 + selB SO0106 0.80 +0.2
117,274 + selB SO0106 0.80 -1.4
117,282 - selB SO0106 0.80 +0.1
117,317 + selB SO0106 0.82 +1.0
117,349 - selB SO0106 0.84 +0.2
117,394 - selB SO0106 0.86 -3.1
117,400 - selB SO0106 0.86 +0.2
117,407 + selB SO0106 0.87 +0.2
117,430 + selB SO0106 0.88 +0.7
117,576 + -1.4
117,576 + -0.4
117,576 + +0.9
117,576 + +0.2
117,584 - -1.1
117,601 - +0.8
117,628 - +0.3
117,679 + -0.3
117,895 + fdhD SO0107 0.13 -1.2
117,901 - fdhD SO0107 0.14 -1.8
117,970 - fdhD SO0107 0.22 +0.2
118,039 - fdhD SO0107 0.30 -1.1
118,080 + fdhD SO0107 0.35 -1.7
118,119 + fdhD SO0107 0.40 -0.1
118,127 - fdhD SO0107 0.41 -0.1
118,147 - fdhD SO0107 0.43 +0.1
118,152 - fdhD SO0107 0.44 +1.2
118,228 + fdhD SO0107 0.53 +2.5
118,248 + fdhD SO0107 0.55 -0.2
118,256 - fdhD SO0107 0.56 +0.6
118,256 - fdhD SO0107 0.56 -0.5
118,256 - fdhD SO0107 0.56 -0.1
118,292 - fdhD SO0107 0.61 -2.4
118,311 - fdhD SO0107 0.63 -2.4
118,328 + fdhD SO0107 0.65 -1.4
118,333 + fdhD SO0107 0.65 +0.3
118,430 + fdhD SO0107 0.77 -2.0
118,519 + fdhD SO0107 0.88 -2.4
118,526 - fdhD SO0107 0.89 +0.2
118,564 + -1.7
118,635 - +0.1
118,644 - -1.3
118,865 - -0.1
118,947 + SO0108 0.16 +0.4
118,969 + SO0108 0.18 -0.9
118,969 + SO0108 0.18 -1.2
118,969 + SO0108 0.18 +0.1
118,969 + SO0108 0.18 -2.3
118,969 + SO0108 0.18 -0.3
118,969 + SO0108 0.18 -1.7
118,969 + SO0108 0.18 +0.6
118,969 + SO0108 0.18 -0.3
118,969 + SO0108 0.18 +0.6
118,969 + SO0108 0.18 +1.5
118,969 + SO0108 0.18 -1.3
118,977 - SO0108 0.19 -1.1
118,977 - SO0108 0.19 +3.2
118,977 - SO0108 0.19 +2.1
118,977 - SO0108 0.19 +1.5
118,977 - SO0108 0.19 +0.2
118,977 - SO0108 0.19 -3.4
118,977 - SO0108 0.19 +0.2
118,977 - SO0108 0.19 -1.1
118,977 - SO0108 0.19 -2.4
119,063 - SO0108 0.26 +2.0
119,069 + SO0108 0.27 +1.6
119,083 + SO0108 0.28 -1.2
119,096 - SO0108 0.29 +0.2
119,137 + SO0108 0.32 -1.3
119,394 - SO0108 0.53 -0.2
119,399 + SO0108 0.54 +0.6
119,416 + SO0108 0.55 -0.4
119,417 - SO0108 0.55 -1.2
119,424 - SO0108 0.56 -0.4
119,429 - SO0108 0.56 +0.2
119,443 - SO0108 0.57 -0.6
119,458 + SO0108 0.59 -1.3
119,499 - SO0108 0.62 -1.4
119,501 - SO0108 0.62 -1.3
119,512 + SO0108 0.63 -0.3
119,606 - SO0108 0.71 -0.8

Or see this region's nucleotide sequence