miRNA: 3'- uCAUUUGU--CGaa--AUGCCGGUaUCAAU- -5'
miRNA: 3'- -UCAUUUG--UCGaaaUGCCGGUaUCAau -5'
miRNA: 3'- -UC-AUUUGUCGAA----------AUGCCGGUauCAau -5'
miRNA: 3'- -UCAUUUGUCGaaa----UGCCGGuaUCAAU- -5'
miRNA: 3'- -UCAUUUGUCGAAAUGCCGGUAUCAAU- -5'
Results 1 - 5 of 5 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 | |||||||
| 22947 | 3' | -45 | NC_005137.2 | + | 101170 | 0.67 | 0.999885 |
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Target: 5'- uGUGGGCGuuGCcaugUACGGCCGcGGUUGg -3' miRNA: 3'- uCAUUUGU--CGaa--AUGCCGGUaUCAAU- -5' |
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| 22947 | 3' | -45 | NC_005137.2 | + | 80794 | 0.68 | 0.999578 |
|
Target: 5'- aAGUAAACaaGGUg--GCGGCCAcAGUg- -3' miRNA: 3'- -UCAUUUG--UCGaaaUGCCGGUaUCAau -5' |
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| 22947 | 3' | -45 | NC_005137.2 | + | 70236 | 0.69 | 0.999158 |
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Target: 5'- cGGuUGAACAGCUUcaggauuuugUGCGGCCAcuGUg- -3' miRNA: 3'- -UC-AUUUGUCGAA----------AUGCCGGUauCAau -5' |
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| 22947 | 3' | -45 | NC_005137.2 | + | 39083 | 0.73 | 0.982606 |
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Target: 5'- uAGUGGACAGCguggucaACGGCC--GGUUAa -3' miRNA: 3'- -UCAUUUGUCGaaa----UGCCGGuaUCAAU- -5' |
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| 22947 | 3' | -45 | NC_005137.2 | + | 73446 | 1.09 | 0.026336 |
|
Target: 5'- aAGUAAACAGCUUUACGGCCAUAGUUAg -3' miRNA: 3'- -UCAUUUGUCGAAAUGCCGGUAUCAAU- -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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