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In order to carry out functional comparisons of T3Es, one could also use gene ontology annotations that do not only depend on sequence similarities [100] [101].
Thus, the effects of predicted charge pairs depend on sequence context, and complementary charges at the edge positions rationalize only a fraction of the sequences that form stable, specific coiled coils.
In order to address this problem, new function prediction methods that do not depend on sequence similarity have been developed [1], [4], [5].
Although they should not crucially depend on sequence, these steps involve time constants that typically enter as a multiplicative factor in the final rate.
As E-value and z-score estimated by the WUBLAST, FASTA and SSEARCH programs depend on sequence length and the size of search database, we assessed the significance of alignments by P-value calculated in the PRSS program from FASTA packed and selected the most significant alignments.
Specificity and stability of DNA duplex formation strongly depend on sequence and base composition [ 15, 16].
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These angles were chosen because we assume that sequence-dependent bending, bendability, and kinking would most likely depend on sequences with these rotational orientations.
These survival stories feel real, even though of course both depend on sequences of luck and circumstance that could never happen.
Since repetitive sequences of these organisms differ greatly, positive results would mean that eccDNA formation does not depend on sequence-specific enzymes.
Therefore, at least part of the Orc2 and Mcm7 binding to the mini-EBV episomes does not depend on sequence-specific interactions with the DNA.
High-throughput community analyses do not have to depend on sequencing.
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