miRNA: 3'- gaCC-ACCA---GCAG--------AGGCCCUCCUGaaa -5'
miRNA: 3'- gaCCAC-CAGCAGA--GGCC-CUCCUGaaa -5'
miRNA: 3'- -GAC--CACCAGCAGAGGCCCuCCUGaaa -5'
miRNA: 3'- gaCCA-CCAGCagAGGCCCUCCuGAaa -5'
miRNA: 3'- -GACCACCAGCAGAGGCCCUCCUGAAA- -5'
Results 1 - 5 of 5 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 | |||||||
| 10370 | 5' | -57.2 | NC_002687.1 | + | 254137 | 0.67 | 0.947125 |
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Target: 5'- -aGGaUGGUugaCGUCuugccuguUCCGGGAGGACc-- -3' miRNA: 3'- gaCC-ACCA---GCAG--------AGGCCCUCCUGaaa -5' |
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| 10370 | 5' | -57.2 | NC_002687.1 | + | 199918 | 0.69 | 0.854777 |
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Target: 5'- -aGGUGuGUCGUCUgcUCGGcGGGGACa-- -3' miRNA: 3'- gaCCAC-CAGCAGA--GGCC-CUCCUGaaa -5' |
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| 10370 | 5' | -57.2 | NC_002687.1 | + | 4740 | 0.73 | 0.670516 |
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Target: 5'- uCUGaaGUGGUUGUUUCCGGG-GGACa-- -3' miRNA: 3'- -GAC--CACCAGCAGAGGCCCuCCUGaaa -5' |
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| 10370 | 5' | -57.2 | NC_002687.1 | + | 210931 | 0.73 | 0.651215 |
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Target: 5'- -cGGUaGGUCGagUCCGGGAGGuCUg- -3' miRNA: 3'- gaCCA-CCAGCagAGGCCCUCCuGAaa -5' |
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| 10370 | 5' | -57.2 | NC_002687.1 | + | 211508 | 1.05 | 0.00943 |
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Target: 5'- cCUGGUGGUCGUCUCCGGGAGGACUUUc -3' miRNA: 3'- -GACCACCAGCAGAGGCCCUCCUGAAA- -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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