miRNA: 3'- aCUGa--CGUC-CGGGCGAACGCaGUGUU- -5'
miRNA: 3'- aCUGACGuCCGGG--------CGAa----CGCAGUGuu -5'
miRNA: 3'- aCUGAC-GUCCGGGcGAACG--CaGUGUU- -5'
miRNA: 3'- aCUGaCGUc-------CGGGCGaaCGCAGUGUu -5'
miRNA: 3'- aCUG---ACGU-CCG-GGCGaa-CGCAGUGUu -5'
Results 21 - 25 of 25 are showing below:
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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 | |||||||
| 6734 | 5' | -57.6 | NC_001875.2 | + | 29480 | 0.66 | 0.763489 |
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Target: 5'- gGGCgccGCAGuGUCCGUUUGUG-CGCAAc -3' miRNA: 3'- aCUGa--CGUC-CGGGCGAACGCaGUGUU- -5' |
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| 6734 | 5' | -57.6 | NC_001875.2 | + | 71521 | 0.66 | 0.763489 |
|
Target: 5'- gGGCUGC-GGCCCcaagaaccGCUgcgacGCGUCGCc- -3' miRNA: 3'- aCUGACGuCCGGG--------CGAa----CGCAGUGuu -5' |
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| 6734 | 5' | -57.6 | NC_001875.2 | + | 112079 | 0.66 | 0.773114 |
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Target: 5'- cGGCUGcCGGGCCCuCUUGUaaGcCACGGu -3' miRNA: 3'- aCUGAC-GUCCGGGcGAACG--CaGUGUU- -5' |
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| 6734 | 5' | -57.6 | NC_001875.2 | + | 26283 | 0.66 | 0.773114 |
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Target: 5'- aGACgGCGucaaacacGCCCGUggGCGUCACGc -3' miRNA: 3'- aCUGaCGUc-------CGGGCGaaCGCAGUGUu -5' |
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| 6734 | 5' | -57.6 | NC_001875.2 | + | 41709 | 0.66 | 0.782609 |
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Target: 5'- gGGCguaUGCGcGGCgCUGCgcgGCGUCGCAu -3' miRNA: 3'- aCUG---ACGU-CCG-GGCGaa-CGCAGUGUu -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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