miRNA display CGI


Results 1 - 13 of 13 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
28506 5' -58.8 NC_005946.1 + 103001 0.66 0.741801
Target:  5'- cCUCGGAUauagaggccgccgaCCuGUCCUCG-CAGGacGCCGg -3'
miRNA:   3'- -GAGCCUG--------------GGcCAGGAGUaGUCC--UGGC- -5'
28506 5' -58.8 NC_005946.1 + 57299 0.66 0.71541
Target:  5'- cCUCGG-CCUGcUCCUCGgcagUCAgGGACCu -3'
miRNA:   3'- -GAGCCuGGGCcAGGAGU----AGU-CCUGGc -5'
28506 5' -58.8 NC_005946.1 + 63608 0.66 0.71541
Target:  5'- cCUgGGGCCCuuuGGacCCUCAggacccgCGGGACCa -3'
miRNA:   3'- -GAgCCUGGG---CCa-GGAGUa------GUCCUGGc -5'
28506 5' -58.8 NC_005946.1 + 28971 0.67 0.665319
Target:  5'- uUCaGAUCCGGaUCC-CAagAGGACCGu -3'
miRNA:   3'- gAGcCUGGGCC-AGGaGUagUCCUGGC- -5'
28506 5' -58.8 NC_005946.1 + 57398 0.67 0.655187
Target:  5'- aCUUGGACCCaGUCUcCugaccCAGGACCc -3'
miRNA:   3'- -GAGCCUGGGcCAGGaGua---GUCCUGGc -5'
28506 5' -58.8 NC_005946.1 + 63946 0.68 0.638942
Target:  5'- -gUGGACCCGGgggucCCUUGUCgcccuuuggcccucuGGGGCCa -3'
miRNA:   3'- gaGCCUGGGCCa----GGAGUAG---------------UCCUGGc -5'
28506 5' -58.8 NC_005946.1 + 28359 0.68 0.614559
Target:  5'- -cCGGGCUagccaGGUcCCUCcUUAGGGCCGu -3'
miRNA:   3'- gaGCCUGGg----CCA-GGAGuAGUCCUGGC- -5'
28506 5' -58.8 NC_005946.1 + 96825 0.68 0.614559
Target:  5'- uCUCGGACCUGG-CCUg---GGGACCc -3'
miRNA:   3'- -GAGCCUGGGCCaGGAguagUCCUGGc -5'
28506 5' -58.8 NC_005946.1 + 40847 0.69 0.564113
Target:  5'- cCUCGGACUCgagcaGGUCC--GUCAGGAUCc -3'
miRNA:   3'- -GAGCCUGGG-----CCAGGagUAGUCCUGGc -5'
28506 5' -58.8 NC_005946.1 + 56469 0.69 0.544218
Target:  5'- cCUCcaGGGCCCuggaggggacggGGUCCUCGUagacgggAGGACCGc -3'
miRNA:   3'- -GAG--CCUGGG------------CCAGGAGUAg------UCCUGGC- -5'
28506 5' -58.8 NC_005946.1 + 63736 0.73 0.363774
Target:  5'- aCUCGGGCCCacGUCCcCAcgGGGACCGu -3'
miRNA:   3'- -GAGCCUGGGc-CAGGaGUagUCCUGGC- -5'
28506 5' -58.8 NC_005946.1 + 88301 0.73 0.355886
Target:  5'- gCUUGGACCUGGUCCUC-UUGGGuuucuCCu -3'
miRNA:   3'- -GAGCCUGGGCCAGGAGuAGUCCu----GGc -5'
28506 5' -58.8 NC_005946.1 + 58621 0.73 0.323357
Target:  5'- aCUCGGGCaCagucacgcuaaacaCGGUCCUgAUgAGGACCGg -3'
miRNA:   3'- -GAGCCUG-G--------------GCCAGGAgUAgUCCUGGC- -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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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.