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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 | |||||||
| 31994 | 3' | -54.9 | NC_006949.1 | + | 2467 | 0.68 | 0.532685 |
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Target: 5'- uCCCUGUaCCGGCGCgGUgguauuGCCCAc -3' miRNA: 3'- uGGGACGgGGUUGCGgUAauu---UGGGU- -5' |
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| 31994 | 3' | -54.9 | NC_006949.1 | + | 8978 | 0.68 | 0.52181 |
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Target: 5'- uACCUUGCCUgaugAugGCCuuaaucucGUUGAGCCCAu -3' miRNA: 3'- -UGGGACGGGg---UugCGG--------UAAUUUGGGU- -5' |
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| 31994 | 3' | -54.9 | NC_006949.1 | + | 15022 | 0.68 | 0.511021 |
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Target: 5'- cCCUUGCCUCAucgUGCCAUUAAGCgUg -3' miRNA: 3'- uGGGACGGGGUu--GCGGUAAUUUGgGu -5' |
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| 31994 | 3' | -54.9 | NC_006949.1 | + | 45353 | 0.7 | 0.43845 |
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Target: 5'- -aCCUGUCCCGcaAUGCCAacaggUAAAUCCAc -3' miRNA: 3'- ugGGACGGGGU--UGCGGUa----AUUUGGGU- -5' |
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| 31994 | 3' | -54.9 | NC_006949.1 | + | 4175 | 0.7 | 0.428564 |
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Target: 5'- aGCCCUcGCCCC-ACGCCAUcAGucagcACUCGu -3' miRNA: 3'- -UGGGA-CGGGGuUGCGGUAaUU-----UGGGU- -5' |
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| 31994 | 3' | -54.9 | NC_006949.1 | + | 23236 | 0.7 | 0.418811 |
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Target: 5'- cACCCUGCCCagauaCAGCcCCGUUAAcCUCAa -3' miRNA: 3'- -UGGGACGGG-----GUUGcGGUAAUUuGGGU- -5' |
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| 31994 | 3' | -54.9 | NC_006949.1 | + | 39777 | 0.76 | 0.178802 |
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Target: 5'- cCCCUGCCUCAugGCCucaAGugCCAu -3' miRNA: 3'- uGGGACGGGGUugCGGuaaUUugGGU- -5' |
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| 31994 | 3' | -54.9 | NC_006949.1 | + | 7838 | 1.08 | 0.000833 |
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Target: 5'- cACCCUGCCCCAACGCCAUUAAACCCAg -3' miRNA: 3'- -UGGGACGGGGUUGCGGUAAUUUGGGU- -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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