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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 | |||||||
| 13055 | 3' | -54.9 | NC_003390.1 | + | 27032 | 0.66 | 0.691967 |
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Target: 5'- ---aUGuuGGaCAgGcCUCAACGGUCUCa -3' miRNA: 3'- cguaAUggCC-GUgC-GAGUUGCCGGAG- -5' |
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| 13055 | 3' | -54.9 | NC_003390.1 | + | 31815 | 0.66 | 0.680897 |
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Target: 5'- --cUUGagGGCgagGCGCUCAGCGGUCUg -3' miRNA: 3'- cguAAUggCCG---UGCGAGUUGCCGGAg -5' |
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| 13055 | 3' | -54.9 | NC_003390.1 | + | 34039 | 0.67 | 0.613856 |
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Target: 5'- cGCAgguacaauCCGGCAUggagcccgGgUgAACGGCCUCa -3' miRNA: 3'- -CGUaau-----GGCCGUG--------CgAgUUGCCGGAG- -5' |
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| 13055 | 3' | -54.9 | NC_003390.1 | + | 45905 | 0.68 | 0.569346 |
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Target: 5'- aGCGgcuaUGCaCGGC-CGCUCAACaGGCUa- -3' miRNA: 3'- -CGUa---AUG-GCCGuGCGAGUUG-CCGGag -5' |
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| 13055 | 3' | -54.9 | NC_003390.1 | + | 5993 | 0.7 | 0.452674 |
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Target: 5'- ----cACCGGUcucagggagGCGCUCGAUaGCCUCa -3' miRNA: 3'- cguaaUGGCCG---------UGCGAGUUGcCGGAG- -5' |
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| 13055 | 3' | -54.9 | NC_003390.1 | + | 6785 | 1.11 | 0.000639 |
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Target: 5'- aGCAUUACCGGCACGCUCAACGGCCUCc -3' miRNA: 3'- -CGUAAUGGCCGUGCGAGUUGCCGGAG- -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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