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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 | |||||||
| 16424 | 3' | -57.8 | NC_004084.1 | + | 48742 | 0.66 | 0.629383 |
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Target: 5'- cCGGCGGGccacccugucaGGGGUucagccauaUCGGGaagcgCGAGGAg -3' miRNA: 3'- -GCUGCCU-----------UCCCG---------AGCCCaa---GCUCCUg -5' |
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| 16424 | 3' | -57.8 | NC_004084.1 | + | 32721 | 0.66 | 0.608021 |
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Target: 5'- gCGugGauGAGGGGaUCGGGgcagcagUUGAGGAUc -3' miRNA: 3'- -GCugC--CUUCCCgAGCCCa------AGCUCCUG- -5' |
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| 16424 | 3' | -57.8 | NC_004084.1 | + | 4058 | 0.69 | 0.426923 |
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Target: 5'- uGACGGAgaaGGGGCgCGaGGagaugcggaaccugaUCGAGGACa -3' miRNA: 3'- gCUGCCU---UCCCGaGC-CCa--------------AGCUCCUG- -5' |
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| 16424 | 3' | -57.8 | NC_004084.1 | + | 6767 | 0.71 | 0.324096 |
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Target: 5'- -cGCGGAAGGGCagucCGaGGUcucggCGGGGACg -3' miRNA: 3'- gcUGCCUUCCCGa---GC-CCAa----GCUCCUG- -5' |
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| 16424 | 3' | -57.8 | NC_004084.1 | + | 8976 | 0.73 | 0.27357 |
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Target: 5'- aCGGCGGGacgAGGGCagcuacgaguUCGacgaggacuccuGGUUCGAGGACc -3' miRNA: 3'- -GCUGCCU---UCCCG----------AGC------------CCAAGCUCCUG- -5' |
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| 16424 | 3' | -57.8 | NC_004084.1 | + | 3658 | 0.73 | 0.266891 |
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Target: 5'- uGGCGGGgguuGGGCUUGGcgUCGAGGAa -3' miRNA: 3'- gCUGCCUu---CCCGAGCCcaAGCUCCUg -5' |
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| 16424 | 3' | -57.8 | NC_004084.1 | + | 9212 | 0.8 | 0.09254 |
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Target: 5'- uCGACGcGAAGGcGUUCGGGUggagCGAGGAg -3' miRNA: 3'- -GCUGC-CUUCC-CGAGCCCAa---GCUCCUg -5' |
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| 16424 | 3' | -57.8 | NC_004084.1 | + | 32017 | 1.08 | 0.00078 |
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Target: 5'- gCGACGGAAGGGCUCGGGUUCGAGGACc -3' miRNA: 3'- -GCUGCCUUCCCGAGCCCAAGCUCCUG- -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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