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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 | |||||||
| 23477 | 3' | -56.7 | NC_005259.1 | + | 56023 | 0.66 | 0.722147 |
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Target: 5'- aCCCUcGCCGGGCGGGaCUUccucgggcggcugcGGGUacuugauggcGUCGa -3' miRNA: 3'- aGGGA-CGGCUUGCUC-GAA--------------CCCA----------CAGC- -5' |
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| 23477 | 3' | -56.7 | NC_005259.1 | + | 16013 | 0.66 | 0.702328 |
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Target: 5'- aUCCUGCCGGuugACGAGggUGGGauuuucaaggcgGUCa -3' miRNA: 3'- aGGGACGGCU---UGCUCgaACCCa-----------CAGc -5' |
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| 23477 | 3' | -56.7 | NC_005259.1 | + | 68520 | 0.66 | 0.694963 |
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Target: 5'- cUUCUGCCGAGCGAGCUgcccgccacgcGUCGa -3' miRNA: 3'- aGGGACGGCUUGCUCGAaccca------CAGC- -5' |
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| 23477 | 3' | -56.7 | NC_005259.1 | + | 10467 | 0.66 | 0.693909 |
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Target: 5'- gUCCUgcgcaGCgGGACGAuCUUGGG-GUCGu -3' miRNA: 3'- -AGGGa----CGgCUUGCUcGAACCCaCAGC- -5' |
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| 23477 | 3' | -56.7 | NC_005259.1 | + | 31742 | 0.67 | 0.662057 |
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Target: 5'- -gCCUGCC--GCGAGCgcuGGUGUCc -3' miRNA: 3'- agGGACGGcuUGCUCGaacCCACAGc -5' |
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| 23477 | 3' | -56.7 | NC_005259.1 | + | 17509 | 0.67 | 0.640675 |
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Target: 5'- aCCUUGCCGAucCGAGCUcgUGGGc---- -3' miRNA: 3'- aGGGACGGCUu-GCUCGA--ACCCacagc -5' |
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| 23477 | 3' | -56.7 | NC_005259.1 | + | 45948 | 0.67 | 0.629968 |
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Target: 5'- aUCCCucagcacguUGCCGAcguugcCGAGCUUGGcgaguGUGUCc -3' miRNA: 3'- -AGGG---------ACGGCUu-----GCUCGAACC-----CACAGc -5' |
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| 23477 | 3' | -56.7 | NC_005259.1 | + | 12529 | 0.68 | 0.594695 |
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Target: 5'- aCCCguagaGCCGAGCGAGCcccacggcauugccgGGGUGg-- -3' miRNA: 3'- aGGGa----CGGCUUGCUCGaa-------------CCCACagc -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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