miRNA: 3'- aCGGcaCGUUUGAGAAA-------AAAAAAAAG- -5'
miRNA: 3'- -ACGGCACGUUUGAGaaaaaaaaaaag -5'
miRNA: 3'- -ACGGCACGUUUGAGaaaaaaaaaaag -5'
miRNA: 3'- -ACGGCACGUUUGAGAAAAAAAAAAAG- -5'
miRNA: 3'- -ACGGCACGUUUGAGAAAAAAAAAAAG- -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 | |||||||
| 31407 | 5' | -38.9 | NC_006633.1 | + | 21239 | 0.67 | 0.999921 |
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Target: 5'- aGCCccGCAAAUUUUUUuaagaaaUUUUUUUUCa -3' miRNA: 3'- aCGGcaCGUUUGAGAAA-------AAAAAAAAG- -5' |
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| 31407 | 5' | -38.9 | NC_006633.1 | + | 12369 | 0.81 | 0.76551 |
|
Target: 5'- uUGCCGUGCAAACUCa----------- -3' miRNA: 3'- -ACGGCACGUUUGAGaaaaaaaaaaag -5' |
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| 31407 | 5' | -38.9 | NC_006633.1 | + | 9359 | 0.81 | 0.76551 |
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Target: 5'- uUGCCGUGCAAACUCa----------- -3' miRNA: 3'- -ACGGCACGUUUGAGaaaaaaaaaaag -5' |
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| 31407 | 5' | -38.9 | NC_006633.1 | + | 9338 | 1.14 | 0.013662 |
|
Target: 5'- aUGCCGUGCAAACUCUUUUUUUUUUUCu -3' miRNA: 3'- -ACGGCACGUUUGAGAAAAAAAAAAAG- -5' |
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| 31407 | 5' | -38.9 | NC_006633.1 | + | 12348 | 1.14 | 0.013662 |
|
Target: 5'- aUGCCGUGCAAACUCUUUUUUUUUUUCu -3' miRNA: 3'- -ACGGCACGUUUGAGAAAAAAAAAAAG- -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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