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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 | |||||||
| 20135 | 5' | -57.2 | NC_004687.1 | + | 130962 | 0.66 | 0.879567 |
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Target: 5'- gUGAGUGGuGGGAGGaccggggucuccGGCCcuccCGUCa- -3' miRNA: 3'- -ACUCACCuUCCUCC------------CCGGaa--GCAGca -5' |
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| 20135 | 5' | -57.2 | NC_004687.1 | + | 47021 | 0.66 | 0.841812 |
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Target: 5'- cGAGUGGAaccacuaccGGGAcgaGGGGCgCUUCauUCGUc -3' miRNA: 3'- aCUCACCU---------UCCU---CCCCG-GAAGc-AGCA- -5' |
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| 20135 | 5' | -57.2 | NC_004687.1 | + | 91164 | 0.67 | 0.825354 |
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Target: 5'- cGAGacGGAAGGucGGGCCcUCGUgGc -3' miRNA: 3'- aCUCa-CCUUCCucCCCGGaAGCAgCa -5' |
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| 20135 | 5' | -57.2 | NC_004687.1 | + | 103836 | 0.69 | 0.714426 |
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Target: 5'- gGGGUuuGGggGGAGGGGCacaUUUGUg-- -3' miRNA: 3'- aCUCA--CCuuCCUCCCCGg--AAGCAgca -5' |
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| 20135 | 5' | -57.2 | NC_004687.1 | + | 96212 | 0.71 | 0.573343 |
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Target: 5'- cGAGUGGcuGaAGGGGCCUUCGgcaGg -3' miRNA: 3'- aCUCACCuuCcUCCCCGGAAGCag-Ca -5' |
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| 20135 | 5' | -57.2 | NC_004687.1 | + | 59742 | 1.08 | 0.002818 |
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Target: 5'- cUGAGUGGAAGGAGGGGCCUUCGUCGUg -3' miRNA: 3'- -ACUCACCUUCCUCCCCGGAAGCAGCA- -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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