miRNA: 3'- uGC-GAGCCCCa-----UACGCGau-GGAGGGG- -5'
miRNA: 3'- -UGCGAGCC-C-Caua---CGCGAUGGa----GGGG- -5'
miRNA: 3'- -UGCGAGC-CCca------UACGCG--AUGGAgGGG- -5'
miRNA: 3'- -UGCGaGCCCCauaCGCGAUGGAGGGG- -5'
miRNA: 3'- -UGCGAGCCCCAUACGCGAUGGAGGGG- -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 | |||||||
| 11595 | 5' | -59 | NC_003085.1 | + | 45972 | 0.71 | 0.231918 |
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Target: 5'- uCGcCUUGGGGcggcagAUGCGCgccUCUCCCCa -3' miRNA: 3'- uGC-GAGCCCCa-----UACGCGau-GGAGGGG- -5' |
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| 11595 | 5' | -59 | NC_003085.1 | + | 647 | 0.72 | 0.226032 |
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Target: 5'- gGCGCUCGGcGcGaaagagGUGCUGCCgugagCCCCg -3' miRNA: 3'- -UGCGAGCC-C-Caua---CGCGAUGGa----GGGG- -5' |
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| 11595 | 5' | -59 | NC_003085.1 | + | 2227 | 0.72 | 0.220273 |
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Target: 5'- gGCGCUCGuGGaaccgcugGUGCGCaaUGCCUgCCCa -3' miRNA: 3'- -UGCGAGC-CCca------UACGCG--AUGGAgGGG- -5' |
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| 11595 | 5' | -59 | NC_003085.1 | + | 31990 | 0.82 | 0.038381 |
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Target: 5'- uACGCcUGGGGcugGCGCUGCCUCCCUu -3' miRNA: 3'- -UGCGaGCCCCauaCGCGAUGGAGGGG- -5' |
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| 11595 | 5' | -59 | NC_003085.1 | + | 36733 | 1.11 | 0.000291 |
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Target: 5'- gACGCUCGGGGUAUGCGCUACCUCCCCu -3' miRNA: 3'- -UGCGAGCCCCAUACGCGAUGGAGGGG- -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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