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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 | |||||||
| 19557 | 3' | -58.4 | NC_004686.1 | + | 16002 | 0.66 | 0.474018 |
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Target: 5'- -gUCgAGGUgaccuCAGCGGCcGGCCAGu -3' miRNA: 3'- gaAGgUCCAac---GUCGCCGcCCGGUUu -5' |
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| 19557 | 3' | -58.4 | NC_004686.1 | + | 49917 | 0.67 | 0.444207 |
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Target: 5'- -gUCCAGccGUUGCGGCGuGCGGuGUCu-- -3' miRNA: 3'- gaAGGUC--CAACGUCGC-CGCC-CGGuuu -5' |
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| 19557 | 3' | -58.4 | NC_004686.1 | + | 21878 | 0.68 | 0.370224 |
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Target: 5'- -cUCCGGGUaucgcuacgGCGGCGGCGGuGgCGGu -3' miRNA: 3'- gaAGGUCCAa--------CGUCGCCGCC-CgGUUu -5' |
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| 19557 | 3' | -58.4 | NC_004686.1 | + | 30035 | 0.7 | 0.276006 |
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Target: 5'- --gCCGGGgucggUGUGGCGGCGGcuuGCCGAu -3' miRNA: 3'- gaaGGUCCa----ACGUCGCCGCC---CGGUUu -5' |
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| 19557 | 3' | -58.4 | NC_004686.1 | + | 2989 | 0.7 | 0.276006 |
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Target: 5'- -aUCCAuGUgGCcuucGCGGCGGGCCAGu -3' miRNA: 3'- gaAGGUcCAaCGu---CGCCGCCCGGUUu -5' |
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| 19557 | 3' | -58.4 | NC_004686.1 | + | 2490 | 1.06 | 0.000623 |
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Target: 5'- cCUUCCAGGUUGCAGCGGCGGGCCAAAg -3' miRNA: 3'- -GAAGGUCCAACGUCGCCGCCCGGUUU- -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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