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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 | |||||||
| 30524 | 3' | -59.4 | NC_006548.1 | + | 28666 | 0.67 | 0.366222 |
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Target: 5'- gCCGccUGAUGGCGUGAagggugUCUUGGUGGuGg -3' miRNA: 3'- aGGC--ACUGCCGUACU------GGGACCGCCuC- -5' |
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| 30524 | 3' | -59.4 | NC_006548.1 | + | 597 | 0.67 | 0.341839 |
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Target: 5'- ----cGGCGGCAgcguccaauccucaaGGCCCUGGUGGAa -3' miRNA: 3'- aggcaCUGCCGUa--------------CUGGGACCGCCUc -5' |
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| 30524 | 3' | -59.4 | NC_006548.1 | + | 18309 | 0.68 | 0.309406 |
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Target: 5'- uUCC-UGAaGGUAUcGACCCUGGCuGGGa -3' miRNA: 3'- -AGGcACUgCCGUA-CUGGGACCGcCUC- -5' |
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| 30524 | 3' | -59.4 | NC_006548.1 | + | 24161 | 0.69 | 0.26626 |
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Target: 5'- gCCGggaUGGCGGCGUcuuguuUCUUGGCGGGGg -3' miRNA: 3'- aGGC---ACUGCCGUAcu----GGGACCGCCUC- -5' |
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| 30524 | 3' | -59.4 | NC_006548.1 | + | 34527 | 0.69 | 0.253 |
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Target: 5'- gCCGUucGACGGC--GACCCUuGGUGGuAGg -3' miRNA: 3'- aGGCA--CUGCCGuaCUGGGA-CCGCC-UC- -5' |
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| 30524 | 3' | -59.4 | NC_006548.1 | + | 16341 | 0.72 | 0.16119 |
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Target: 5'- gCCGUGGCGGCAacGACCUgcgGGUguacgaGGAGa -3' miRNA: 3'- aGGCACUGCCGUa-CUGGGa--CCG------CCUC- -5' |
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| 30524 | 3' | -59.4 | NC_006548.1 | + | 37516 | 0.73 | 0.14446 |
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Target: 5'- gCCGUGGCGGCAUGuacuCCCaaauUGGCGu-- -3' miRNA: 3'- aGGCACUGCCGUACu---GGG----ACCGCcuc -5' |
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| 30524 | 3' | -59.4 | NC_006548.1 | + | 17880 | 1.08 | 0.00029 |
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Target: 5'- aUCCGUGACGGCAUGACCCUGGCGGAGu -3' miRNA: 3'- -AGGCACUGCCGUACUGGGACCGCCUC- -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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