miRNA: 3'- ucCCaGGUCGCCaaCGUU--GACCUUGu -5'
miRNA: 3'- ucCCaGGUCGCCaaCGUU--GACCUUGu -5'
miRNA: 3'- -UCCCAggUCGCCAA---CGU--UGACCUUGu -5'
miRNA: 3'- -UCCCAGGUCGCCAACGUUGACCUUGU- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 10260 | 3' | -54.8 | NC_002686.1 | + | 105619 | 0.67 | 0.861714 |
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Target: 5'- -cGG-CCGGCGGagGCGAgcCUGGAGCc -3' miRNA: 3'- ucCCaGGUCGCCaaCGUU--GACCUUGu -5' |
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| 10260 | 3' | -54.8 | NC_002686.1 | + | 122536 | 0.67 | 0.861714 |
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Target: 5'- -cGG-CCGGCGGagGCGAgcCUGGAGCc -3' miRNA: 3'- ucCCaGGUCGCCaaCGUU--GACCUUGu -5' |
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| 10260 | 3' | -54.8 | NC_002686.1 | + | 101869 | 0.71 | 0.619242 |
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Target: 5'- aAGGGUggAGCGGUUgaaGCAacGCUGGGACc -3' miRNA: 3'- -UCCCAggUCGCCAA---CGU--UGACCUUGu -5' |
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| 10260 | 3' | -54.8 | NC_002686.1 | + | 17996 | 1.09 | 0.00269 |
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Target: 5'- aAGGGUCCAGCGGUUGCAACUGGAACAg -3' miRNA: 3'- -UCCCAGGUCGCCAACGUUGACCUUGU- -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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