miRNA display CGI


Results 1 - 15 of 15 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
11594 5' -62.3 NC_003085.1 + 30515 0.66 0.34164
Target:  5'- cCACCGU-CGGcGGGGCccuguaggcgauGGCG-CUCAUGg -3'
miRNA:   3'- -GUGGCAcGCC-UCCCG------------CCGCgGAGUAC- -5'
11594 5' -62.3 NC_003085.1 + 47979 0.66 0.338471
Target:  5'- gGCCGcgucgagcaagucGCGGAGGgaggacGCGGCGCaggUCAUGg -3'
miRNA:   3'- gUGGCa------------CGCCUCC------CGCCGCGg--AGUAC- -5'
11594 5' -62.3 NC_003085.1 + 27492 0.66 0.336895
Target:  5'- gGCC-UGUGGAacuggacguacgacGGCGGCGCCggCAUGg -3'
miRNA:   3'- gUGGcACGCCUc-------------CCGCCGCGGa-GUAC- -5'
11594 5' -62.3 NC_003085.1 + 34938 0.66 0.333759
Target:  5'- gCACgCG-GCGGAGuugcuggccGGCggaGGCGCCUCAc- -3'
miRNA:   3'- -GUG-GCaCGCCUC---------CCG---CCGCGGAGUac -5'
11594 5' -62.3 NC_003085.1 + 49191 0.66 0.324479
Target:  5'- cCGCCGcUGCuccucagugagagggGGAGGGUuccuccacuucucgaGGCGCCUCu-- -3'
miRNA:   3'- -GUGGC-ACG---------------CCUCCCG---------------CCGCGGAGuac -5'
11594 5' -62.3 NC_003085.1 + 450 0.67 0.268864
Target:  5'- aCACgGcGCGGAGGGCcagccGGCGCUguugCAg- -3'
miRNA:   3'- -GUGgCaCGCCUCCCG-----CCGCGGa---GUac -5'
11594 5' -62.3 NC_003085.1 + 25332 0.68 0.249613
Target:  5'- cCACCGacaagGUGGAuGGCGcGCGCUUCcgGa -3'
miRNA:   3'- -GUGGCa----CGCCUcCCGC-CGCGGAGuaC- -5'
11594 5' -62.3 NC_003085.1 + 48598 0.69 0.225733
Target:  5'- aCACCGUcuGCGGAgugccuucGGGCaGCGCgaCGUGa -3'
miRNA:   3'- -GUGGCA--CGCCU--------CCCGcCGCGgaGUAC- -5'
11594 5' -62.3 NC_003085.1 + 24217 0.69 0.220074
Target:  5'- aCGCCcgccGCGGAgcgcaccaGGGCGGCGCCg-GUGa -3'
miRNA:   3'- -GUGGca--CGCCU--------CCCGCCGCGGagUAC- -5'
11594 5' -62.3 NC_003085.1 + 11642 0.69 0.220074
Target:  5'- aGCgCGcGCGGAGGGCauuGCGCCggGUGg -3'
miRNA:   3'- gUG-GCaCGCCUCCCGc--CGCGGagUAC- -5'
11594 5' -62.3 NC_003085.1 + 43188 0.69 0.193569
Target:  5'- cCGCCGcGCGGuacuucGCGGCGuCCUCGUGc -3'
miRNA:   3'- -GUGGCaCGCCucc---CGCCGC-GGAGUAC- -5'
11594 5' -62.3 NC_003085.1 + 30648 0.7 0.174418
Target:  5'- cUACCGUggcgagucgcuGCGGcAGGGCGcucuGCGCCUCGc- -3'
miRNA:   3'- -GUGGCA-----------CGCC-UCCCGC----CGCGGAGUac -5'
11594 5' -62.3 NC_003085.1 + 15081 0.74 0.084134
Target:  5'- gGCCcUGgaGGAGGGaCGGCGCCUCAc- -3'
miRNA:   3'- gUGGcACg-CCUCCC-GCCGCGGAGUac -5'
11594 5' -62.3 NC_003085.1 + 7626 0.75 0.078293
Target:  5'- gCGCCGgGCGGGacucauggggcgcuuGGGCGGCGCCgaCAUGc -3'
miRNA:   3'- -GUGGCaCGCCU---------------CCCGCCGCGGa-GUAC- -5'
11594 5' -62.3 NC_003085.1 + 36441 1.08 0.000229
Target:  5'- uCACCGUGCGGAGGGCGGCGCCUCAUGg -3'
miRNA:   3'- -GUGGCACGCCUCCCGCCGCGGAGUAC- -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.