miRNA: 3'- uAGGACGUC-UCa---AGGGAGCCGUU--GCU- -5'
miRNA: 3'- uagGACGU-CUCaaGGg--AGCCGUUGCU- -5'
miRNA: 3'- -UAGGACGUCUCa--AGGGaGCCGuugcu -5'
miRNA: 3'- uaGGaCGUC-------UCAAG-GGAGCCGUUGCU- -5'
miRNA: 3'- -UAGGACGUCUCAAGGGAGCCGUUGCU- -5'
Results 1 - 5 of 5 are showing below:
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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 | |||||||
| 139 | 5' | -55.7 | AC_000006.1 | + | 16811 | 0.67 | 0.46219 |
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Target: 5'- cUCCUGCGGcGGgaucUUCCUCGGUAAuuCGGa -3' miRNA: 3'- uAGGACGUC-UCa---AGGGAGCCGUU--GCU- -5' |
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| 139 | 5' | -55.7 | AC_000006.1 | + | 9696 | 0.67 | 0.441629 |
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Target: 5'- --gCUGCAcGAGcgCCaggUCGGCGACGAc -3' miRNA: 3'- uagGACGU-CUCaaGGg--AGCCGUUGCU- -5' |
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| 139 | 5' | -55.7 | AC_000006.1 | + | 5573 | 0.7 | 0.330183 |
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Target: 5'- uGUCCUGCAGGGgcgUCCCgCGGUc---- -3' miRNA: 3'- -UAGGACGUCUCa--AGGGaGCCGuugcu -5' |
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| 139 | 5' | -55.7 | AC_000006.1 | + | 3790 | 0.71 | 0.274667 |
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Target: 5'- -gCCaGCAGggccagcAGUUCuCCUCGGCGAUGAu -3' miRNA: 3'- uaGGaCGUC-------UCAAG-GGAGCCGUUGCU- -5' |
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| 139 | 5' | -55.7 | AC_000006.1 | + | 19512 | 1.07 | 0.000628 |
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Target: 5'- gAUCCUGCAGAGUUCCCUCGGCAACGAc -3' miRNA: 3'- -UAGGACGUCUCAAGGGAGCCGUUGCU- -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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