miRNA: 3'- -AGGUGGUUccAGGAAGUa-GUGUAGCU- -5'
miRNA: 3'- -AGGUGGUUCCaGGaa-GuaGUGUaGCU- -5'
miRNA: 3'- -AGGUGGU------------UC-CAGGAAGu---AGUGUAGCU- -5'
miRNA: 3'- aGGUGGUU--CCAGGA----AGUAGUGUAGCU- -5'
miRNA: 3'- -AGGUGGUUCCAGGAAGUAGUGUAGCU- -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 | |||||||
| 20776 | 5' | -50.7 | NC_004689.1 | + | 25787 | 0.67 | 0.937542 |
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Target: 5'- uUCCACCAGaaUUCUUCGaaCAUAUCGAg -3' miRNA: 3'- -AGGUGGUUccAGGAAGUa-GUGUAGCU- -5' |
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| 20776 | 5' | -50.7 | NC_004689.1 | + | 62988 | 0.67 | 0.914236 |
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Target: 5'- gUCCACCGAGGaCCaagCcgCGCAcCGGu -3' miRNA: 3'- -AGGUGGUUCCaGGaa-GuaGUGUaGCU- -5' |
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| 20776 | 5' | -50.7 | NC_004689.1 | + | 11773 | 0.68 | 0.900884 |
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Target: 5'- aUUCGCCGcgauuacgcugcGGcGUCCUUCucguUCACGUUGAc -3' miRNA: 3'- -AGGUGGU------------UC-CAGGAAGu---AGUGUAGCU- -5' |
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| 20776 | 5' | -50.7 | NC_004689.1 | + | 61180 | 0.77 | 0.445486 |
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Target: 5'- aUCAUCGAacGGUCCUcgacUCAUCGCAUCGGc -3' miRNA: 3'- aGGUGGUU--CCAGGA----AGUAGUGUAGCU- -5' |
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| 20776 | 5' | -50.7 | NC_004689.1 | + | 19976 | 1.1 | 0.003481 |
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Target: 5'- uUCCACCAAGGUCCUUCAUCACAUCGAc -3' miRNA: 3'- -AGGUGGUUCCAGGAAGUAGUGUAGCU- -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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