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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 | |||||||
| 16642 | 3' | -47.7 | NC_004156.1 | + | 104776 | 0.67 | 0.999775 |
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Target: 5'- cUCGAccgGUGcGGACUCCUU---UCAAGa -3' miRNA: 3'- -AGCUca-UAC-CCUGAGGAGuuuAGUUC- -5' |
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| 16642 | 3' | -47.7 | NC_004156.1 | + | 151348 | 0.7 | 0.998168 |
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Target: 5'- -aGAGUGUGGccaGACUCUUCAAaguaGUCAc- -3' miRNA: 3'- agCUCAUACC---CUGAGGAGUU----UAGUuc -5' |
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| 16642 | 3' | -47.7 | NC_004156.1 | + | 191687 | 0.7 | 0.99637 |
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Target: 5'- gUCGAcUGUGGGACUCgCUCAGcuacgaCGAGu -3' miRNA: 3'- -AGCUcAUACCCUGAG-GAGUUua----GUUC- -5' |
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| 16642 | 3' | -47.7 | NC_004156.1 | + | 20217 | 0.71 | 0.995744 |
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Target: 5'- gUUGAGUgcacugAUGGGACUCUUCAAGa---- -3' miRNA: 3'- -AGCUCA------UACCCUGAGGAGUUUaguuc -5' |
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| 16642 | 3' | -47.7 | NC_004156.1 | + | 147949 | 0.71 | 0.992304 |
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Target: 5'- aUGAGUAacagucUGGGACUCUUUAuAGUCAAa -3' miRNA: 3'- aGCUCAU------ACCCUGAGGAGU-UUAGUUc -5' |
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| 16642 | 3' | -47.7 | NC_004156.1 | + | 92076 | 0.72 | 0.989902 |
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Target: 5'- cCGAGguacgGGGAUUCUUCAAA-CGAGg -3' miRNA: 3'- aGCUCaua--CCCUGAGGAGUUUaGUUC- -5' |
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| 16642 | 3' | -47.7 | NC_004156.1 | + | 92366 | 0.97 | 0.139983 |
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Target: 5'- aUCGA-UAUGGGACUCCUCAAAUCAAGa -3' miRNA: 3'- -AGCUcAUACCCUGAGGAGUUUAGUUC- -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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