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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 | |||||||
| 18394 | 5' | -53 | NC_004681.1 | + | 28446 | 0.66 | 0.867385 |
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Target: 5'- uGCAUCGGcGCCGG-GGUGAcgaGGACa-- -3' miRNA: 3'- uUGUAGCU-CGGCCaCUACU---UCUGgaa -5' |
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| 18394 | 5' | -53 | NC_004681.1 | + | 40073 | 0.66 | 0.867385 |
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Target: 5'- ----cCGAGCCGGUGA-GuuGACCc- -3' miRNA: 3'- uuguaGCUCGGCCACUaCuuCUGGaa -5' |
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| 18394 | 5' | -53 | NC_004681.1 | + | 67536 | 0.66 | 0.841878 |
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Target: 5'- --gAUgGAGUCGGUGAUGuccggguuGGCCUUg -3' miRNA: 3'- uugUAgCUCGGCCACUACuu------CUGGAA- -5' |
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| 18394 | 5' | -53 | NC_004681.1 | + | 8762 | 0.67 | 0.823724 |
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Target: 5'- cGACAgguUCGGGCUGGUGAc--GGGCCg- -3' miRNA: 3'- -UUGU---AGCUCGGCCACUacuUCUGGaa -5' |
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| 18394 | 5' | -53 | NC_004681.1 | + | 22342 | 0.69 | 0.674013 |
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Target: 5'- cAGCGUCGAgGUCGGUGAaaucccccacggcGAGGACCUc -3' miRNA: 3'- -UUGUAGCU-CGGCCACUa------------CUUCUGGAa -5' |
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| 18394 | 5' | -53 | NC_004681.1 | + | 32696 | 0.79 | 0.214256 |
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Target: 5'- cGACGUCGcgcGGCUGGUgGAUGAGGACCUc -3' miRNA: 3'- -UUGUAGC---UCGGCCA-CUACUUCUGGAa -5' |
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| 18394 | 5' | -53 | NC_004681.1 | + | 14981 | 1.03 | 0.005402 |
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Target: 5'- cAACAUCGAGCCGGUGAUGAAGACCUUc -3' miRNA: 3'- -UUGUAGCUCGGCCACUACUUCUGGAA- -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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