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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 28550 | 5' | -53.3 | NC_005946.1 | + | 12955 | 0.71 | 0.714985 |
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Target: 5'- aGGUGcGCCUACA-GGuGCUccaacGUGUCCGu -3' miRNA: 3'- -CCGC-CGGAUGUaCCuCGAu----UACAGGU- -5' |
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| 28550 | 5' | -53.3 | NC_005946.1 | + | 13348 | 0.66 | 0.931616 |
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Target: 5'- cGgGGCCUACAuaucccUGcuGCUGggGUCCAg -3' miRNA: 3'- cCgCCGGAUGU------ACcuCGAUuaCAGGU- -5' |
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| 28550 | 5' | -53.3 | NC_005946.1 | + | 39996 | 0.66 | 0.926125 |
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Target: 5'- uGgGGCuCUGCGaugucccguUGGGGCUcugcGAUGUCCc -3' miRNA: 3'- cCgCCG-GAUGU---------ACCUCGA----UUACAGGu -5' |
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| 28550 | 5' | -53.3 | NC_005946.1 | + | 47931 | 0.66 | 0.914354 |
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Target: 5'- cGGCGGCCUcCAU-GAGCUccucGAcucccuuccUGUCCc -3' miRNA: 3'- -CCGCCGGAuGUAcCUCGA----UU---------ACAGGu -5' |
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| 28550 | 5' | -53.3 | NC_005946.1 | + | 59198 | 0.66 | 0.908075 |
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Target: 5'- cGCGGCCUGCGccugcUGG-GCaauguUGUCUAu -3' miRNA: 3'- cCGCCGGAUGU-----ACCuCGauu--ACAGGU- -5' |
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| 28550 | 5' | -53.3 | NC_005946.1 | + | 63714 | 0.68 | 0.86508 |
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Target: 5'- uGGUGGCCUccaucacggcgcACAUGGAGgggUAGUGgUCUAc -3' miRNA: 3'- -CCGCCGGA------------UGUACCUCg--AUUAC-AGGU- -5' |
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| 28550 | 5' | -53.3 | NC_005946.1 | + | 73569 | 0.74 | 0.544597 |
|
Target: 5'- uGGCGGCCcuccuCAUGGAGCagcacgcGUCCGc -3' miRNA: 3'- -CCGCCGGau---GUACCUCGauua---CAGGU- -5' |
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| 28550 | 5' | -53.3 | NC_005946.1 | + | 98189 | 0.67 | 0.901537 |
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Target: 5'- gGGCGGCCUGCAccu-GCUccacaaccAUGUCCc -3' miRNA: 3'- -CCGCCGGAUGUaccuCGAu-------UACAGGu -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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