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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 | |||||||
| 11640 | 3' | -55.6 | NC_003094.2 | + | 65310 | 0.66 | 0.896265 |
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Target: 5'- aGCGUcUUGCACguUGGGCGgaaUGUUaGCUCGu -3' miRNA: 3'- -UGCAaAGCGUG--GCCCGU---ACAG-CGAGC- -5' |
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| 11640 | 3' | -55.6 | NC_003094.2 | + | 20438 | 0.66 | 0.882616 |
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Target: 5'- aACGUuuggugguuacUUCGCGCUGGGCGgcgGaUCGUUUu -3' miRNA: 3'- -UGCA-----------AAGCGUGGCCCGUa--C-AGCGAGc -5' |
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| 11640 | 3' | -55.6 | NC_003094.2 | + | 81702 | 0.67 | 0.875451 |
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Target: 5'- gGCGgaggUCGCAggcguUCGGGCGgugGUCGCa-- -3' miRNA: 3'- -UGCaa--AGCGU-----GGCCCGUa--CAGCGagc -5' |
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| 11640 | 3' | -55.6 | NC_003094.2 | + | 29294 | 0.69 | 0.763677 |
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Target: 5'- aGCGaUUUCGUuguGCCGGGCGUGuucgaucugauccUCGC-CGa -3' miRNA: 3'- -UGC-AAAGCG---UGGCCCGUAC-------------AGCGaGC- -5' |
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| 11640 | 3' | -55.6 | NC_003094.2 | + | 51096 | 1.08 | 0.003473 |
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Target: 5'- aACGUUUCGCACCGGGCAUGUCGCUCGc -3' miRNA: 3'- -UGCAAAGCGUGGCCCGUACAGCGAGC- -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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