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miRNA: 3'- -CC-GCACCaCuUGCCAUUua-------CCGGGUG- -5'
miRNA: 3'- -CCGCa----CCAcUUGCCaUUU-------------ACCGGGUG- -5'
miRNA: 3'- -CCGCACCAc-----------UUGCCAuuu-ACCG--GGUG- -5'
miRNA: 3'- -CCGCacCACUug------CCAUu--UACCGGGUG- -5'
Results 81 - 84 of 84 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 14547 | 5' | -53 | NC_003521.1 | + | 30788 | 0.66 | 0.990168 |
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Target: 5'- uGGaUGUGG-GcGCGGUAGcgcaccgagGGCCCGCc -3' miRNA: 3'- -CC-GCACCaCuUGCCAUUua-------CCGGGUG- -5' |
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| 14547 | 5' | -53 | NC_003521.1 | + | 142941 | 0.66 | 0.988714 |
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Target: 5'- cGGCGgucagGGUcAGCGG-GGGccccuggucucccUGGCCCGCa -3' miRNA: 3'- -CCGCa----CCAcUUGCCaUUU-------------ACCGGGUG- -5' |
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| 14547 | 5' | -53 | NC_003521.1 | + | 90973 | 0.66 | 0.988574 |
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Target: 5'- cGGCGUGGUuuaugggauggcGACGGUuaccUGGCaaCCACg -3' miRNA: 3'- -CCGCACCAc-----------UUGCCAuuu-ACCG--GGUG- -5' |
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| 14547 | 5' | -53 | NC_003521.1 | + | 36725 | 0.66 | 0.99426 |
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Target: 5'- aGGCGcaGUGGcgccaccaGGUGcacGUGGCCCACg -3' miRNA: 3'- -CCGCacCACUug------CCAUu--UACCGGGUG- -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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