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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 | |||||||
| 1821 | 3' | -54.5 | NC_001347.2 | + | 193260 | 0.66 | 0.982032 |
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Target: 5'- uGGuGAGGGGCGUGUguuugacauuuUUUCGgCCgcgGAGg -3' miRNA: 3'- -CC-UUUCCCGCGCA-----------AGAGCgGGaa-CUC- -5' |
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| 1821 | 3' | -54.5 | NC_001347.2 | + | 29811 | 0.67 | 0.956945 |
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Target: 5'- uGAacGAGGGCGUGUUgUCGCCg--GAu -3' miRNA: 3'- cCU--UUCCCGCGCAAgAGCGGgaaCUc -5' |
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| 1821 | 3' | -54.5 | NC_001347.2 | + | 42315 | 0.67 | 0.956945 |
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Target: 5'- ----uGGGCGCGcgCUCGCCgUcguugGAGu -3' miRNA: 3'- ccuuuCCCGCGCaaGAGCGGgAa----CUC- -5' |
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| 1821 | 3' | -54.5 | NC_001347.2 | + | 67611 | 0.68 | 0.940427 |
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Target: 5'- cGGuu-GGGCGCGUugaUCUagGCCCaaGAGc -3' miRNA: 3'- -CCuuuCCCGCGCA---AGAg-CGGGaaCUC- -5' |
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| 1821 | 3' | -54.5 | NC_001347.2 | + | 94515 | 0.68 | 0.935736 |
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Target: 5'- gGGGAAGGGCGCGgaccccgggUCcCGUCCa---- -3' miRNA: 3'- -CCUUUCCCGCGCa--------AGaGCGGGaacuc -5' |
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| 1821 | 3' | -54.5 | NC_001347.2 | + | 182029 | 0.69 | 0.914683 |
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Target: 5'- cGGccuGGGGCGCGggCUCGUUCgUGGc -3' miRNA: 3'- -CCuu-UCCCGCGCaaGAGCGGGaACUc -5' |
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| 1821 | 3' | -54.5 | NC_001347.2 | + | 29418 | 0.71 | 0.861845 |
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Target: 5'- cGGAAu--GCGCGUUCUCGgCCU-GGGa -3' miRNA: 3'- -CCUUuccCGCGCAAGAGCgGGAaCUC- -5' |
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| 1821 | 3' | -54.5 | NC_001347.2 | + | 145022 | 0.71 | 0.822241 |
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Target: 5'- ----cGGGCGUGUUUUCGUCCUcGAa -3' miRNA: 3'- ccuuuCCCGCGCAAGAGCGGGAaCUc -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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