miRNA: 3'- cccUGCGGUCC-UUa--CAGCUUGu-GUGG- -5'
miRNA: 3'- -CCCUG--CGGucCUUACAGcUUGUGUGG- -5'
miRNA: 3'- cCCUgCGGUC-CU--UACAGCUugUG---UGG- -5'
miRNA: 3'- cCCugCGGUCCUuacagcuUGUGUGG- -5'
miRNA: 3'- -CCCUGCGGUCCUUACAGCUUGUGUGG- -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 | |||||||
| 15656 | 5' | -52.1 | NC_004064.1 | + | 3399 | 0.66 | 0.303952 |
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Target: 5'- --aGCGCCGGGcAAgugGUUGGGCucCACCa -3' miRNA: 3'- cccUGCGGUCC-UUa--CAGCUUGu-GUGG- -5' |
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| 15656 | 5' | -52.1 | NC_004064.1 | + | 4356 | 0.7 | 0.164237 |
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Target: 5'- uGGGACgaGUCuuGAGUGUUuGGCACACCg -3' miRNA: 3'- -CCCUG--CGGucCUUACAGcUUGUGUGG- -5' |
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| 15656 | 5' | -52.1 | NC_004064.1 | + | 7109 | 0.71 | 0.149097 |
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Target: 5'- cGGAgGCCAGcGAagGUGUUGAugGCcucACCa -3' miRNA: 3'- cCCUgCGGUC-CU--UACAGCUugUG---UGG- -5' |
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| 15656 | 5' | -52.1 | NC_004064.1 | + | 1032 | 0.71 | 0.143871 |
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Target: 5'- aGGugGCCAGGA-------GCACACCa -3' miRNA: 3'- cCCugCGGUCCUuacagcuUGUGUGG- -5' |
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| 15656 | 5' | -52.1 | NC_004064.1 | + | 5905 | 1.14 | 0.000064 |
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Target: 5'- gGGGACGCCAGGAAUGUCGAACACACCc -3' miRNA: 3'- -CCCUGCGGUCCUUACAGCUUGUGUGG- -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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