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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 | |||||||
| 16633 | 3' | -44 | NC_004156.1 | + | 53437 | 0.66 | 1 |
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Target: 5'- ---aGCUUGUGCGGUucgUUUGAGgUGg- -3' miRNA: 3'- uuuaCGGACACGUCA---AAAUUUgACau -5' |
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| 16633 | 3' | -44 | NC_004156.1 | + | 169532 | 0.66 | 1 |
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Target: 5'- cGAGUGCCguacguguUGUGCGGUgaugUUAAACa--- -3' miRNA: 3'- -UUUACGG--------ACACGUCAa---AAUUUGacau -5' |
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| 16633 | 3' | -44 | NC_004156.1 | + | 221299 | 0.67 | 0.999997 |
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Target: 5'- uAAAUGUaaacucuaaaCUGUGguGUUUUAuaAACUGUGu -3' miRNA: 3'- -UUUACG----------GACACguCAAAAU--UUGACAU- -5' |
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| 16633 | 3' | -44 | NC_004156.1 | + | 150649 | 0.69 | 0.999966 |
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Target: 5'- -uGUGCCUGUcguugaccaagauGCAGcugaUUGAGCUGUAu -3' miRNA: 3'- uuUACGGACA-------------CGUCaa--AAUUUGACAU- -5' |
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| 16633 | 3' | -44 | NC_004156.1 | + | 12111 | 0.7 | 0.999939 |
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Target: 5'- uGAUGUgUGUGCGuguGUUUUGAaaACUGUAg -3' miRNA: 3'- uUUACGgACACGU---CAAAAUU--UGACAU- -5' |
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| 16633 | 3' | -44 | NC_004156.1 | + | 56770 | 0.7 | 0.999939 |
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Target: 5'- -uAUGCUUGUuCAGUUUUAGACcGUGu -3' miRNA: 3'- uuUACGGACAcGUCAAAAUUUGaCAU- -5' |
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| 16633 | 3' | -44 | NC_004156.1 | + | 57060 | 1.05 | 0.078807 |
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Target: 5'- uAAAUGCCUGUGCAGUUUUAAACUGUAc -3' miRNA: 3'- -UUUACGGACACGUCAAAAUUUGACAU- -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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