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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 | |||||||
| 16701 | 5' | -50.2 | NC_004156.1 | + | 76891 | 0.66 | 0.998514 |
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Target: 5'- --uAUGGGCUCGGUgGUCGGUguCAUGu- -3' miRNA: 3'- uuuUGUCUGAGCCA-CAGCCG--GUAUuu -5' |
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| 16701 | 5' | -50.2 | NC_004156.1 | + | 110974 | 0.66 | 0.998514 |
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Target: 5'- cGAGCAGGCUCucaaGUCGGCCu---- -3' miRNA: 3'- uUUUGUCUGAGcca-CAGCCGGuauuu -5' |
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| 16701 | 5' | -50.2 | NC_004156.1 | + | 33448 | 0.66 | 0.998514 |
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Target: 5'- ---uUAGACUCGGUGU-GGCUcgGu- -3' miRNA: 3'- uuuuGUCUGAGCCACAgCCGGuaUuu -5' |
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| 16701 | 5' | -50.2 | NC_004156.1 | + | 180416 | 0.66 | 0.997859 |
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Target: 5'- -cGGCAGcACUCGGuUGUUGGUgGUGu- -3' miRNA: 3'- uuUUGUC-UGAGCC-ACAGCCGgUAUuu -5' |
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| 16701 | 5' | -50.2 | NC_004156.1 | + | 209481 | 0.66 | 0.996978 |
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Target: 5'- gGAuuCAGAgUCGGUGUCaGuGCCAg--- -3' miRNA: 3'- -UUuuGUCUgAGCCACAG-C-CGGUauuu -5' |
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| 16701 | 5' | -50.2 | NC_004156.1 | + | 41346 | 0.68 | 0.988614 |
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Target: 5'- gGAGGCGGuuUCGGUGgaucaggCGGCgGUGGAa -3' miRNA: 3'- -UUUUGUCugAGCCACa------GCCGgUAUUU- -5' |
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| 16701 | 5' | -50.2 | NC_004156.1 | + | 213730 | 1.04 | 0.026027 |
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Target: 5'- cAAAACAGACUCGGUGUCGGCCAUAAAc -3' miRNA: 3'- -UUUUGUCUGAGCCACAGCCGGUAUUU- -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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