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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 | |||||||
| 19700 | 3' | -52.6 | NC_004686.1 | + | 47955 | 0.66 | 0.841523 |
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Target: 5'- cCGGCGCGacGGAagccucuacacguaCCUCCGUaUGUGGAa -3' miRNA: 3'- uGCCGUGUa-CCU--------------GGAGGUA-AUACCUc -5' |
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| 19700 | 3' | -52.6 | NC_004686.1 | + | 25595 | 0.66 | 0.825988 |
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Target: 5'- uGCGGUACAUGGcggagAUCaagacgucggaUCCGUcGUGGAGc -3' miRNA: 3'- -UGCCGUGUACC-----UGG-----------AGGUAaUACCUC- -5' |
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| 19700 | 3' | -52.6 | NC_004686.1 | + | 39197 | 0.68 | 0.731523 |
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Target: 5'- -gGGCGCAUGaccggccguguccuGACCcCCGUUgagGUGGAGa -3' miRNA: 3'- ugCCGUGUAC--------------CUGGaGGUAA---UACCUC- -5' |
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| 19700 | 3' | -52.6 | NC_004686.1 | + | 24304 | 0.69 | 0.668534 |
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Target: 5'- -gGGCAgcgGUGGAUUUCgAUUGUGGAGc -3' miRNA: 3'- ugCCGUg--UACCUGGAGgUAAUACCUC- -5' |
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| 19700 | 3' | -52.6 | NC_004686.1 | + | 32005 | 0.72 | 0.523543 |
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Target: 5'- uGCGGUGCGUaacauggugcGGGCCUCCugu-UGGGGg -3' miRNA: 3'- -UGCCGUGUA----------CCUGGAGGuaauACCUC- -5' |
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| 19700 | 3' | -52.6 | NC_004686.1 | + | 13011 | 0.72 | 0.502073 |
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Target: 5'- cCGGgACAUGGACUUgCAguucacgugUGUGGAGa -3' miRNA: 3'- uGCCgUGUACCUGGAgGUa--------AUACCUC- -5' |
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| 19700 | 3' | -52.6 | NC_004686.1 | + | 14124 | 0.74 | 0.373851 |
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Target: 5'- gGCGGCGC--GGACuugCUCCAUaAUGGAGg -3' miRNA: 3'- -UGCCGUGuaCCUG---GAGGUAaUACCUC- -5' |
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| 19700 | 3' | -52.6 | NC_004686.1 | + | 42056 | 1.08 | 0.002062 |
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Target: 5'- gACGGCACAUGGACCUCCAUUAUGGAGc -3' miRNA: 3'- -UGCCGUGUACCUGGAGGUAAUACCUC- -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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