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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 | |||||||
| 23516 | 3' | -52.4 | NC_005259.1 | + | 22022 | 0.66 | 0.872078 |
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Target: 5'- cGCACUGCCgUCAacggauaccagaacCGCGAgcccGUCCUCa -3' miRNA: 3'- uUGUGACGG-AGU--------------GCGUUac--UAGGAGa -5' |
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| 23516 | 3' | -52.4 | NC_005259.1 | + | 24322 | 0.66 | 0.857986 |
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Target: 5'- cGACAUgguccgGCCUCACGCGcUGG-CCUa- -3' miRNA: 3'- -UUGUGa-----CGGAGUGCGUuACUaGGAga -5' |
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| 23516 | 3' | -52.4 | NC_005259.1 | + | 59385 | 0.66 | 0.849358 |
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Target: 5'- cGCACcgUGCCUcCGCGCGcgagcGUGA-CCUCg -3' miRNA: 3'- uUGUG--ACGGA-GUGCGU-----UACUaGGAGa -5' |
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| 23516 | 3' | -52.4 | NC_005259.1 | + | 290 | 0.67 | 0.831394 |
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Target: 5'- uACGCgGCCUCGCGC--UGAU-CUCg -3' miRNA: 3'- uUGUGaCGGAGUGCGuuACUAgGAGa -5' |
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| 23516 | 3' | -52.4 | NC_005259.1 | + | 61962 | 0.67 | 0.831394 |
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Target: 5'- -cCGCaGCCUCACGCGccGcugCCUCg -3' miRNA: 3'- uuGUGaCGGAGUGCGUuaCua-GGAGa -5' |
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| 23516 | 3' | -52.4 | NC_005259.1 | + | 3491 | 0.67 | 0.812548 |
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Target: 5'- cACcCUGCCUCACGCGaccauGUGcgCCg-- -3' miRNA: 3'- uUGuGACGGAGUGCGU-----UACuaGGaga -5' |
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| 23516 | 3' | -52.4 | NC_005259.1 | + | 19502 | 0.69 | 0.719239 |
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Target: 5'- cGACACagggUGCCaCGCGCGcgGAaaUCCUCa -3' miRNA: 3'- -UUGUG----ACGGaGUGCGUuaCU--AGGAGa -5' |
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| 23516 | 3' | -52.4 | NC_005259.1 | + | 64758 | 0.7 | 0.61854 |
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Target: 5'- -cCGC-GCCUCGCGaCGGUGcgCCUCg -3' miRNA: 3'- uuGUGaCGGAGUGC-GUUACuaGGAGa -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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