miRNA: 3'- cCGCca---CUUCGUCCGGcGa---GCGCUCG- -5'
miRNA: 3'- ccGCCACUUcgUCCGGCGAGCGcuCG- -5'
miRNA: 3'- -CCGCCa-----CUUCGu------CCgGCGAGCGC--UCG- -5'
miRNA: 3'- -CCGC-Ca--CUUCg---UCCGGCGAGCgCUCG- -5'
miRNA: 3'- cCGC-CACUuCGUcc-GGCG-AGCGCUCG- -5'
Results 21 - 25 of 25 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 | |||||||
| 31912 | 5' | -59.6 | NC_006938.1 | + | 30775 | 0.66 | 0.5119 |
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Target: 5'- cGCGaucaaGGAGCAGGCC-CgacgCGUGGGCu -3' miRNA: 3'- cCGCca---CUUCGUCCGGcGa---GCGCUCG- -5' |
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| 31912 | 5' | -59.6 | NC_006938.1 | + | 54053 | 0.66 | 0.5119 |
|
Target: 5'- -aCGGUGGGagGGGCUGCUCGCc-GCa -3' miRNA: 3'- ccGCCACUUcgUCCGGCGAGCGcuCG- -5' |
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| 31912 | 5' | -59.6 | NC_006938.1 | + | 30105 | 0.66 | 0.532169 |
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Target: 5'- cGGCGGaggcugGGAGUucugccuGGgCGUUCGCGcgGGCa -3' miRNA: 3'- -CCGCCa-----CUUCGu------CCgGCGAGCGC--UCG- -5' |
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| 31912 | 5' | -59.6 | NC_006938.1 | + | 36953 | 0.66 | 0.542412 |
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Target: 5'- uGGCGaGagcGAGGaucaGGGCUGUUCG-GAGCg -3' miRNA: 3'- -CCGC-Ca--CUUCg---UCCGGCGAGCgCUCG- -5' |
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| 31912 | 5' | -59.6 | NC_006938.1 | + | 25356 | 0.66 | 0.552719 |
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Target: 5'- uGCGcGUGAcGCGcuuCCGCaUCGUGAGCg -3' miRNA: 3'- cCGC-CACUuCGUcc-GGCG-AGCGCUCG- -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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