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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 | |||||||
| 28431 | 3' | -55.6 | NC_005946.1 | + | 4267 | 0.68 | 0.731513 |
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Target: 5'- ---aGGccGUCgggGGCUCCCACGGAGu- -3' miRNA: 3'- acgaCCuaCAG---CCGAGGGUGCCUUuc -5' |
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| 28431 | 3' | -55.6 | NC_005946.1 | + | 12403 | 0.69 | 0.690403 |
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Target: 5'- gGCUGGAccgUGU-GGCUCCaCGCccGGGGAGc -3' miRNA: 3'- aCGACCU---ACAgCCGAGG-GUG--CCUUUC- -5' |
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| 28431 | 3' | -55.6 | NC_005946.1 | + | 45130 | 0.7 | 0.606305 |
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Target: 5'- gGUUGGucuUGUCcGCUCCUAUGGGGAa -3' miRNA: 3'- aCGACCu--ACAGcCGAGGGUGCCUUUc -5' |
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| 28431 | 3' | -55.6 | NC_005946.1 | + | 28983 | 0.71 | 0.585314 |
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Target: 5'- uUGCUGc---UCGGCUCCCACGGc--- -3' miRNA: 3'- -ACGACcuacAGCCGAGGGUGCCuuuc -5' |
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| 28431 | 3' | -55.6 | NC_005946.1 | + | 12732 | 0.72 | 0.503329 |
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Target: 5'- gGCUGGAgcUGUCuGCUCCCuACGGuuccucGGAGg -3' miRNA: 3'- aCGACCU--ACAGcCGAGGG-UGCC------UUUC- -5' |
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| 28431 | 3' | -55.6 | NC_005946.1 | + | 10477 | 0.75 | 0.374038 |
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Target: 5'- cUGCUGGGucUGcUUGGCUCCUAUGGAc-- -3' miRNA: 3'- -ACGACCU--AC-AGCCGAGGGUGCCUuuc -5' |
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| 28431 | 3' | -55.6 | NC_005946.1 | + | 83160 | 1.1 | 0.001747 |
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Target: 5'- aUGCUGGAUGUCGGCUCCCACGGAAAGg -3' miRNA: 3'- -ACGACCUACAGCCGAGGGUGCCUUUC- -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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