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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
24253 | 3' | -59.8 | NC_005263.2 | + | 27275 | 0.68 | 0.342258 |
Target: 5'- -uGGcccGACUgCGCGAGGCCGAGccgcGCCu -3' miRNA: 3'- guCC---UUGAaGCGCUCCGGCUCc---CGGc -5' |
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24253 | 3' | -59.8 | NC_005263.2 | + | 39697 | 0.69 | 0.282169 |
Target: 5'- -uGGGGCgagCGCGAgcuggaaauGGCCGGcgcGGGCCGc -3' miRNA: 3'- guCCUUGaa-GCGCU---------CCGGCU---CCCGGC- -5' |
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24253 | 3' | -59.8 | NC_005263.2 | + | 41327 | 0.71 | 0.202795 |
Target: 5'- aGGGcggcGACUUCGaCGAGGCCGAGcucGCCc -3' miRNA: 3'- gUCC----UUGAAGC-GCUCCGGCUCc--CGGc -5' |
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24253 | 3' | -59.8 | NC_005263.2 | + | 15311 | 0.74 | 0.128755 |
Target: 5'- uCAGcGAGCUgCGCGAGG-CGcGGGCCGa -3' miRNA: 3'- -GUC-CUUGAaGCGCUCCgGCuCCCGGC- -5' |
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24253 | 3' | -59.8 | NC_005263.2 | + | 8338 | 1.08 | 0.000374 |
Target: 5'- uCAGGAACUUCGCGAGGCCGAGGGCCGa -3' miRNA: 3'- -GUCCUUGAAGCGCUCCGGCUCCCGGC- -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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