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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
21998 | 3' | -49.6 | NC_004914.1 | + | 39362 | 0.67 | 0.929918 |
Target: 5'- uGCAUCGaUCAUUugcAACGCcACGGGg-- -3' miRNA: 3'- uUGUAGC-AGUAGu--UUGCG-UGCCCauu -5' |
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21998 | 3' | -49.6 | NC_004914.1 | + | 7369 | 0.68 | 0.862493 |
Target: 5'- -uCGUCGUCAUCAGaaaaaccucugccuGCGUACaGGGUu- -3' miRNA: 3'- uuGUAGCAGUAGUU--------------UGCGUG-CCCAuu -5' |
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21998 | 3' | -49.6 | NC_004914.1 | + | 56965 | 0.69 | 0.847531 |
Target: 5'- --aGUCGUCGUgcuGCGCACGGGc-- -3' miRNA: 3'- uugUAGCAGUAguuUGCGUGCCCauu -5' |
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21998 | 3' | -49.6 | NC_004914.1 | + | 39231 | 1.04 | 0.007875 |
Target: 5'- cAACAUCGUCAUCAAACGCACGGGUAAu -3' miRNA: 3'- -UUGUAGCAGUAGUUUGCGUGCCCAUU- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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