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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 | |||||||
| 10634 | 3' | -55.1 | NC_002702.1 | + | 2928 | 0.66 | 0.547359 |
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Target: 5'- gUCAUCgGGUCAaauaUAGGaGGCC-UGCCAg -3' miRNA: 3'- -AGUGGgUUAGU----AUCCaCCGGuGCGGU- -5' |
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| 10634 | 3' | -55.1 | NC_002702.1 | + | 197 | 0.68 | 0.448828 |
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Target: 5'- cCACCCAAcaGUGGGUggaaccgaaacgGGCCgccucgcACGCCAc -3' miRNA: 3'- aGUGGGUUagUAUCCA------------CCGG-------UGCGGU- -5' |
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| 10634 | 3' | -55.1 | NC_002702.1 | + | 7573 | 0.68 | 0.399975 |
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Target: 5'- -gGCCCAGUgAggggaaaccuGGUGGCCAagagaGCCAc -3' miRNA: 3'- agUGGGUUAgUau--------CCACCGGUg----CGGU- -5' |
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| 10634 | 3' | -55.1 | NC_002702.1 | + | 16782 | 0.7 | 0.344989 |
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Target: 5'- aUCACCCcccgaauGUCAaagUAGGUgcuGGCCAUGuCCAg -3' miRNA: 3'- -AGUGGGu------UAGU---AUCCA---CCGGUGC-GGU- -5' |
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| 10634 | 3' | -55.1 | NC_002702.1 | + | 19394 | 0.7 | 0.303472 |
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Target: 5'- aCACUCuucUCuUGGGUGGguaCCACGCCAg -3' miRNA: 3'- aGUGGGuu-AGuAUCCACC---GGUGCGGU- -5' |
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| 10634 | 3' | -55.1 | NC_002702.1 | + | 12845 | 0.74 | 0.17555 |
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Target: 5'- uUCACCCAgauAUCGUuuuGGcgccgGGCUGCGCCAu -3' miRNA: 3'- -AGUGGGU---UAGUAu--CCa----CCGGUGCGGU- -5' |
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| 10634 | 3' | -55.1 | NC_002702.1 | + | 12669 | 1 | 0.0021 |
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Target: 5'- gUCACCC-AUCAUAGGUGGCCACGCCAc -3' miRNA: 3'- -AGUGGGuUAGUAUCCACCGGUGCGGU- -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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