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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 28527 | 5' | -60.6 | NC_005946.1 | + | 94320 | 0.72 | 0.292231 |
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Target: 5'- aUCAGGCUGaGGGAGGGcagguacaGGCCGgacgGCGu -3' miRNA: 3'- -AGUCCGACcCCUUCCC--------UCGGCa---CGUc -5' |
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| 28527 | 5' | -60.6 | NC_005946.1 | + | 89755 | 0.66 | 0.610465 |
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Target: 5'- gUCAGGacCUGGGGAGugucGGGcAGCCacccgGCGGc -3' miRNA: 3'- -AGUCC--GACCCCUU----CCC-UCGGca---CGUC- -5' |
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| 28527 | 5' | -60.6 | NC_005946.1 | + | 84846 | 0.66 | 0.619684 |
|
Target: 5'- gUCAGGCgggacgacuGGGAgucugacagguucAGGGGGCUGUGUu- -3' miRNA: 3'- -AGUCCGac-------CCCU-------------UCCCUCGGCACGuc -5' |
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| 28527 | 5' | -60.6 | NC_005946.1 | + | 83894 | 0.71 | 0.306118 |
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Target: 5'- gCGGGgUggaugcaagacaGGGuGAGGGGGGCCGUGUGGc -3' miRNA: 3'- aGUCCgA------------CCC-CUUCCCUCGGCACGUC- -5' |
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| 28527 | 5' | -60.6 | NC_005946.1 | + | 73628 | 0.73 | 0.247511 |
|
Target: 5'- -uGGGCUGGGGucuuuuuuGGGAGacgaggucUCGUGCAGg -3' miRNA: 3'- agUCCGACCCCuu------CCCUC--------GGCACGUC- -5' |
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| 28527 | 5' | -60.6 | NC_005946.1 | + | 72791 | 0.73 | 0.241606 |
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Target: 5'- gUCAGGCUGGGaAAGGGccuGCCGgGCu- -3' miRNA: 3'- -AGUCCGACCCcUUCCCu--CGGCaCGuc -5' |
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| 28527 | 5' | -60.6 | NC_005946.1 | + | 71778 | 0.66 | 0.556616 |
|
Target: 5'- gCGGGCacgguccuggUGGGGAAGgugucucacucccuGGGGCCGggagGCAa -3' miRNA: 3'- aGUCCG----------ACCCCUUC--------------CCUCGGCa---CGUc -5' |
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| 28527 | 5' | -60.6 | NC_005946.1 | + | 12774 | 0.67 | 0.539608 |
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Target: 5'- aCAGGUgGGGGGAcGGcGCUGUGCu- -3' miRNA: 3'- aGUCCGaCCCCUUcCCuCGGCACGuc -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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