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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 | |||||||
| 631 | 5' | -57.3 | AC_000017.1 | + | 4624 | 0.67 | 0.405331 |
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Target: 5'- ----aUGGGC-CCACGggcggcgGCCuGGGCGAa -3' miRNA: 3'- cucuaACUCGaGGUGCa------CGG-CCCGCU- -5' |
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| 631 | 5' | -57.3 | AC_000017.1 | + | 25285 | 0.67 | 0.402501 |
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Target: 5'- cAGGUUgcaGAGCUCCACGUuggaaauuuugcagGCCuGGCGc -3' miRNA: 3'- cUCUAA---CUCGAGGUGCA--------------CGGcCCGCu -5' |
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| 631 | 5' | -57.3 | AC_000017.1 | + | 23839 | 0.67 | 0.395946 |
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Target: 5'- cGAGGUUGAuggCCGCGgGCUGGGUGu -3' miRNA: 3'- -CUCUAACUcgaGGUGCaCGGCCCGCu -5' |
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| 631 | 5' | -57.3 | AC_000017.1 | + | 24587 | 0.71 | 0.241765 |
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Target: 5'- cGGGUUGGGCUCgCAUGUGCCguuuucuugucguuuGGGgGGu -3' miRNA: 3'- cUCUAACUCGAG-GUGCACGG---------------CCCgCU- -5' |
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| 631 | 5' | -57.3 | AC_000017.1 | + | 9067 | 1.09 | 0.000337 |
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Target: 5'- cGAGAUUGAGCUCCACGUGCCGGGCGAa -3' miRNA: 3'- -CUCUAACUCGAGGUGCACGGCCCGCU- -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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