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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 | |||||||
| 31880 | 3' | -52.9 | NC_006938.1 | + | 7648 | 0.66 | 0.810999 |
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Target: 5'- uGCUUgGCCAGcgUGGucuuGCCCGUCc-- -3' miRNA: 3'- -UGAGgUGGUCa-ACCuu--CGGGUAGuua -5' |
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| 31880 | 3' | -52.9 | NC_006938.1 | + | 32593 | 0.67 | 0.780096 |
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Target: 5'- cCUCCagaguggGCCAGUUGGucAGCUCGUCc-- -3' miRNA: 3'- uGAGG-------UGGUCAACCu-UCGGGUAGuua -5' |
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| 31880 | 3' | -52.9 | NC_006938.1 | + | 30790 | 0.68 | 0.739055 |
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Target: 5'- cCUCCuCCGGUgucUGGAAGUCCAcgUCGc- -3' miRNA: 3'- uGAGGuGGUCA---ACCUUCGGGU--AGUua -5' |
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| 31880 | 3' | -52.9 | NC_006938.1 | + | 40797 | 0.69 | 0.672793 |
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Target: 5'- cCUCCAgCGGUccaaGGAGGCCCGUgcCAAg -3' miRNA: 3'- uGAGGUgGUCAa---CCUUCGGGUA--GUUa -5' |
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| 31880 | 3' | -52.9 | NC_006938.1 | + | 32430 | 0.69 | 0.650253 |
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Target: 5'- cUUCCGCCAGUUcaacAAGCCCAUUGAc -3' miRNA: 3'- uGAGGUGGUCAAcc--UUCGGGUAGUUa -5' |
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| 31880 | 3' | -52.9 | NC_006938.1 | + | 33959 | 0.7 | 0.593783 |
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Target: 5'- uGCUCCGCCGGaucaacgaGGAgcAGCUCAUCAc- -3' miRNA: 3'- -UGAGGUGGUCaa------CCU--UCGGGUAGUua -5' |
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| 31880 | 3' | -52.9 | NC_006938.1 | + | 43532 | 1.06 | 0.002536 |
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Target: 5'- aACUCCACCAGUUGGAAGCCCAUCAAUg -3' miRNA: 3'- -UGAGGUGGUCAACCUUCGGGUAGUUA- -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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