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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
17650 | 5' | -49.2 | NC_004466.2 | + | 32114 | 1.13 | 0.002006 |
Target: 5'- gUGUUUGAAGGACAGGAUGGGGAAUCCc -3' miRNA: 3'- -ACAAACUUCCUGUCCUACCCCUUAGG- -5' |
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17650 | 5' | -49.2 | NC_004466.2 | + | 20987 | 0.66 | 0.928941 |
Target: 5'- aUGUcacUGAGGGAgGGGcgGaaGGggUCCu -3' miRNA: 3'- -ACAa--ACUUCCUgUCCuaCc-CCuuAGG- -5' |
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17650 | 5' | -49.2 | NC_004466.2 | + | 982 | 0.66 | 0.950264 |
Target: 5'- aGg--GAGGGGCuAGGGgcauaccccUGGGGAuaggCCa -3' miRNA: 3'- aCaaaCUUCCUG-UCCU---------ACCCCUua--GG- -5' |
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17650 | 5' | -49.2 | NC_004466.2 | + | 29485 | 0.66 | 0.934731 |
Target: 5'- aUGUUUGAGuauugccuACAGGAUGGGGuuGUUa -3' miRNA: 3'- -ACAAACUUcc------UGUCCUACCCCu-UAGg -5' |
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17650 | 5' | -49.2 | NC_004466.2 | + | 12735 | 0.66 | 0.945391 |
Target: 5'- ----aGGAGGccaAUAGGcuUGGGGAagGUCCa -3' miRNA: 3'- acaaaCUUCC---UGUCCu-ACCCCU--UAGG- -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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