miRNA: 3'- ugGCAAAGGCCa-CugCGUCAUU---------AUCG- -5'
miRNA: 3'- -UGGCAaaggCCAC-UGCGUCAU---UAUCG- -5'
miRNA: 3'- -UGG---CAAAGGCCacu-GCGUCAUUA-UCG- -5'
miRNA: 3'- uGGCAAAGGCca---CUGCGUCauua--UCG- -5'
miRNA: 3'- uGGCAAAGGCCA-CUGCGUc---AUUAUCG- -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 | |||||||
| 30638 | 5' | -49.6 | NC_006549.1 | + | 69779 | 0.66 | 0.997286 |
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Target: 5'- -aCGUUUUCGGccGugGUAGUGGacggaagauUAGCa -3' miRNA: 3'- ugGCAAAGGCCa-CugCGUCAUU---------AUCG- -5' |
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| 30638 | 5' | -49.6 | NC_006549.1 | + | 134119 | 0.66 | 0.997286 |
|
Target: 5'- aGCCGU----GGUGaACGCAGUGuuuAUGGUg -3' miRNA: 3'- -UGGCAaaggCCAC-UGCGUCAU---UAUCG- -5' |
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| 30638 | 5' | -49.6 | NC_006549.1 | + | 57252 | 0.68 | 0.989394 |
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Target: 5'- cGCCaauGUUUCUGGguucCGCGGUGGUcAGCa -3' miRNA: 3'- -UGG---CAAAGGCCacu-GCGUCAUUA-UCG- -5' |
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| 30638 | 5' | -49.6 | NC_006549.1 | + | 91387 | 0.68 | 0.987915 |
|
Target: 5'- uUCGUUUCCGcacggGACGCAGacggugGGCg -3' miRNA: 3'- uGGCAAAGGCca---CUGCGUCauua--UCG- -5' |
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| 30638 | 5' | -49.6 | NC_006549.1 | + | 134337 | 0.74 | 0.832975 |
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Target: 5'- cCCGUUUUCGGUaGACGCGuacaUGAUGGUa -3' miRNA: 3'- uGGCAAAGGCCA-CUGCGUc---AUUAUCG- -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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