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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 | |||||||
| 23540 | 5' | -46 | NC_005260.1 | + | 96068 | 0.66 | 0.999999 |
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Target: 5'- -cAGAUCGuAAUaaUCGGCCAGAUuGUGa -3' miRNA: 3'- guUCUAGC-UUAagGGCCGGUUUA-UAC- -5' |
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| 23540 | 5' | -46 | NC_005260.1 | + | 184819 | 0.66 | 0.999998 |
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Target: 5'- gAAGAUCGGuuguuAUUCaagaCGGCCAAGc--- -3' miRNA: 3'- gUUCUAGCU-----UAAGg---GCCGGUUUauac -5' |
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| 23540 | 5' | -46 | NC_005260.1 | + | 119152 | 0.67 | 0.999992 |
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Target: 5'- aAAGAauUCGGAUUCauauaCGGUCGGAUAa- -3' miRNA: 3'- gUUCU--AGCUUAAGg----GCCGGUUUAUac -5' |
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| 23540 | 5' | -46 | NC_005260.1 | + | 216124 | 0.68 | 0.999932 |
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Target: 5'- gGAGAUUGGAUUCCagaCGGCaCAGAa--- -3' miRNA: 3'- gUUCUAGCUUAAGG---GCCG-GUUUauac -5' |
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| 23540 | 5' | -46 | NC_005260.1 | + | 147445 | 0.7 | 0.999378 |
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Target: 5'- --uGAUCGAAUUUuuGGCgaAGAUAUGc -3' miRNA: 3'- guuCUAGCUUAAGggCCGg-UUUAUAC- -5' |
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| 23540 | 5' | -46 | NC_005260.1 | + | 221830 | 0.72 | 0.997573 |
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Target: 5'- aCAAGAaugcgaacuaugUUGGAUUCCgugaCGGCCAAGUGUa -3' miRNA: 3'- -GUUCU------------AGCUUAAGG----GCCGGUUUAUAc -5' |
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| 23540 | 5' | -46 | NC_005260.1 | + | 141324 | 1.09 | 0.040486 |
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Target: 5'- gCAAGAUCGAAUUCCCGGCCAAAUAUGu -3' miRNA: 3'- -GUUCUAGCUUAAGGGCCGGUUUAUAC- -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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