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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 | |||||||
| 12648 | 3' | -57.9 | NC_003345.1 | + | 23071 | 0.66 | 0.633543 |
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Target: 5'- cACCGUUCGGGCCGuc-GUCGgacgAGa- -3' miRNA: 3'- cUGGCAAGCCCGGCcuaCGGCa---UCau -5' |
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| 12648 | 3' | -57.9 | NC_003345.1 | + | 51326 | 0.68 | 0.559703 |
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Target: 5'- cACCGUUgucucCGGGCCGGAggcuccagcGCCGguagaGGUAa -3' miRNA: 3'- cUGGCAA-----GCCCGGCCUa--------CGGCa----UCAU- -5' |
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| 12648 | 3' | -57.9 | NC_003345.1 | + | 29111 | 0.73 | 0.27138 |
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Target: 5'- uGACCGUagugacagagCGGGCCGGugucuAUGUCGUAGUu -3' miRNA: 3'- -CUGGCAa---------GCCCGGCC-----UACGGCAUCAu -5' |
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| 12648 | 3' | -57.9 | NC_003345.1 | + | 64304 | 0.74 | 0.250127 |
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Target: 5'- -cCCGUUCGGGCCGGGgugcaugaagugaaUccccuugacGCCGUGGUGc -3' miRNA: 3'- cuGGCAAGCCCGGCCU--------------A---------CGGCAUCAU- -5' |
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| 12648 | 3' | -57.9 | NC_003345.1 | + | 55461 | 1.07 | 0.001174 |
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Target: 5'- cGACCGUUCGGGCCGGAUGCCGUAGUAg -3' miRNA: 3'- -CUGGCAAGCCCGGCCUACGGCAUCAU- -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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