miRNA display CGI


Results 1 - 20 of 34 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
11929 3' -60.9 NC_003278.1 + 9605 0.74 0.077869
Target:  5'- aGcGGCAGCAGCUGcGC-CAGGCGCuGGc -3'
miRNA:   3'- aC-CCGUUGUCGAC-CGcGUCCGUG-CCa -5'
11929 3' -60.9 NC_003278.1 + 21467 0.66 0.293002
Target:  5'- aGGGCcuCGGCgccGGC-CAGGC-CGGc -3'
miRNA:   3'- aCCCGuuGUCGa--CCGcGUCCGuGCCa -5'
11929 3' -60.9 NC_003278.1 + 34509 0.66 0.293002
Target:  5'- cUGcGCAACGGCUGGUGgCAuGGCcaccucaggaauGCGGg -3'
miRNA:   3'- -ACcCGUUGUCGACCGC-GU-CCG------------UGCCa -5'
11929 3' -60.9 NC_003278.1 + 21643 0.66 0.264482
Target:  5'- cUGGGCAAgAGCgccGGCGCcaucGGUGCccuGGUg -3'
miRNA:   3'- -ACCCGUUgUCGa--CCGCGu---CCGUG---CCA- -5'
11929 3' -60.9 NC_003278.1 + 20275 0.67 0.251087
Target:  5'- -cGGCAAC-GCUGGCGUccaGGGCAgcaUGGc -3'
miRNA:   3'- acCCGUUGuCGACCGCG---UCCGU---GCCa -5'
11929 3' -60.9 NC_003278.1 + 14634 0.67 0.238255
Target:  5'- -cGGCAACGGCcuggucGGCGguGGCgauuugucuGCGGa -3'
miRNA:   3'- acCCGUUGUCGa-----CCGCguCCG---------UGCCa -5'
11929 3' -60.9 NC_003278.1 + 29382 0.67 0.238255
Target:  5'- cUGGGCGACG--UGGCGguG-CGCGGc -3'
miRNA:   3'- -ACCCGUUGUcgACCGCguCcGUGCCa -5'
11929 3' -60.9 NC_003278.1 + 19381 0.67 0.225977
Target:  5'- aGGuCAGCAccgcGCUGGCcgcgcaaCAGGCACGGg -3'
miRNA:   3'- aCCcGUUGU----CGACCGc------GUCCGUGCCa -5'
11929 3' -60.9 NC_003278.1 + 28087 0.68 0.21424
Target:  5'- cUGGuCGACAGCcccUGGUucauccgcuGCGGGCGCGGc -3'
miRNA:   3'- -ACCcGUUGUCG---ACCG---------CGUCCGUGCCa -5'
11929 3' -60.9 NC_003278.1 + 9441 0.7 0.150116
Target:  5'- gUGGGUAcaGCAGCagcgcaucgaccUGGCGCAGGCcCGc- -3'
miRNA:   3'- -ACCCGU--UGUCG------------ACCGCGUCCGuGCca -5'
11929 3' -60.9 NC_003278.1 + 28421 0.71 0.130473
Target:  5'- cGGGCGACAGCccGCGC-GGCGucUGGUg -3'
miRNA:   3'- aCCCGUUGUCGacCGCGuCCGU--GCCA- -5'
11929 3' -60.9 NC_003278.1 + 31628 0.71 0.116496
Target:  5'- cUGGGCGGCGGCgc-CGCAGGCuucaacCGGg -3'
miRNA:   3'- -ACCCGUUGUCGaccGCGUCCGu-----GCCa -5'
11929 3' -60.9 NC_003278.1 + 5638 0.67 0.228389
Target:  5'- cGGGgAACuuggcccaggcgucgAGCaUGGCGUAGGUgauuGCGGUg -3'
miRNA:   3'- aCCCgUUG---------------UCG-ACCGCGUCCG----UGCCA- -5'
11929 3' -60.9 NC_003278.1 + 13311 0.67 0.244601
Target:  5'- gGGGCGACGGUcGGCGUcguugagguAGGCGuCGa- -3'
miRNA:   3'- aCCCGUUGUCGaCCGCG---------UCCGU-GCca -5'
11929 3' -60.9 NC_003278.1 + 11963 0.66 0.257713
Target:  5'- gGGGCGuuccauucGCGGUcGGCGCcGGCccGCGGc -3'
miRNA:   3'- aCCCGU--------UGUCGaCCGCGuCCG--UGCCa -5'
11929 3' -60.9 NC_003278.1 + 5758 0.66 0.264482
Target:  5'- --uGCAGCAGCgGGUugGC-GGCGCGGUu -3'
miRNA:   3'- accCGUUGUCGaCCG--CGuCCGUGCCA- -5'
11929 3' -60.9 NC_003278.1 + 8596 0.66 0.271395
Target:  5'- aGGGCGGCGacGUUGcCGCGGGaACGGa -3'
miRNA:   3'- aCCCGUUGU--CGACcGCGUCCgUGCCa -5'
11929 3' -60.9 NC_003278.1 + 13671 0.66 0.293002
Target:  5'- aGGGCuuCGGC-GGC-CAGGCGCu-- -3'
miRNA:   3'- aCCCGuuGUCGaCCGcGUCCGUGcca -5'
11929 3' -60.9 NC_003278.1 + 7462 0.66 0.293002
Target:  5'- cUGGGCcuugucguuGCcGCUGGUGguGGUgucguaccaGCGGUa -3'
miRNA:   3'- -ACCCGu--------UGuCGACCGCguCCG---------UGCCA- -5'
11929 3' -60.9 NC_003278.1 + 17599 1.06 0.000202
Target:  5'- cUGGGCAACAGCUGGCGCAGGCACGGUc -3'
miRNA:   3'- -ACCCGUUGUCGACCGCGUCCGUGCCA- -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.