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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 | |||||||
| 31322 | 3' | -56 | NC_006623.1 | + | 144835 | 0.66 | 0.895329 |
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Target: 5'- -gAGGCGGCCGGcGGACGacuUGCCgguacgaccuaccuCCCGGc -3' miRNA: 3'- uaUUCGUCGGUC-UCUGC---AUGG--------------GGGCU- -5' |
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| 31322 | 3' | -56 | NC_006623.1 | + | 130519 | 0.67 | 0.837464 |
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Target: 5'- cUGAGCcGCCGGGGACugaaacgACCUUCGAc -3' miRNA: 3'- uAUUCGuCGGUCUCUGca-----UGGGGGCU- -5' |
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| 31322 | 3' | -56 | NC_006623.1 | + | 68144 | 0.68 | 0.811683 |
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Target: 5'- uUGAGUAGCCAacuGAuCGUACCUCCu- -3' miRNA: 3'- uAUUCGUCGGUcu-CU-GCAUGGGGGcu -5' |
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| 31322 | 3' | -56 | NC_006623.1 | + | 34324 | 0.68 | 0.775014 |
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Target: 5'- --cGGCAaCCGGAGACGc-CUCCCGAc -3' miRNA: 3'- uauUCGUcGGUCUCUGCauGGGGGCU- -5' |
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| 31322 | 3' | -56 | NC_006623.1 | + | 138744 | 0.68 | 0.765496 |
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Target: 5'- -aAGGCGGCCAGGuauucgcgacGGCGcAUCUCCGAu -3' miRNA: 3'- uaUUCGUCGGUCU----------CUGCaUGGGGGCU- -5' |
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| 31322 | 3' | -56 | NC_006623.1 | + | 122867 | 0.68 | 0.765496 |
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Target: 5'- -aAGGCGGCCAGGuauucgcgacGGCGcAUCUCCGAu -3' miRNA: 3'- uaUUCGUCGGUCU----------CUGCaUGGGGGCU- -5' |
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| 31322 | 3' | -56 | NC_006623.1 | + | 116776 | 0.7 | 0.659015 |
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Target: 5'- -gAGGCGGCCGGcGGACGacuugccguacgaccUACCuCCCGGc -3' miRNA: 3'- uaUUCGUCGGUC-UCUGC---------------AUGG-GGGCU- -5' |
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| 31322 | 3' | -56 | NC_006623.1 | + | 68361 | 1.07 | 0.003299 |
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Target: 5'- cAUAAGCAGCCAGAGACGUACCCCCGAa -3' miRNA: 3'- -UAUUCGUCGGUCUCUGCAUGGGGGCU- -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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