miRNA display CGI


Results 1 - 20 of 25 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
27944 3' -50.7 NC_005886.2 + 23693 0.66 0.914504
Target:  5'- -aGGCGUGCGUggCGAUGcUga-GGCa -3'
miRNA:   3'- cgCCGCGCGCGaaGCUAUaAaugCUG- -5'
27944 3' -50.7 NC_005886.2 + 35200 0.66 0.914504
Target:  5'- gGCGGCGUGCGCacuggUCGAa--------- -3'
miRNA:   3'- -CGCCGCGCGCGa----AGCUauaaaugcug -5'
27944 3' -50.7 NC_005886.2 + 36891 0.66 0.90082
Target:  5'- uGCGGCGCGCagGUcuUUCGGga--UACGuACg -3'
miRNA:   3'- -CGCCGCGCG--CG--AAGCUauaaAUGC-UG- -5'
27944 3' -50.7 NC_005886.2 + 11556 0.66 0.90082
Target:  5'- uGCGG-GCGUagucaccaaGCUUCGggAUUgcCGACa -3'
miRNA:   3'- -CGCCgCGCG---------CGAAGCuaUAAauGCUG- -5'
27944 3' -50.7 NC_005886.2 + 36336 0.66 0.885973
Target:  5'- gGCGGCaCGgGCggUGGUAcggGCGGCa -3'
miRNA:   3'- -CGCCGcGCgCGaaGCUAUaaaUGCUG- -5'
27944 3' -50.7 NC_005886.2 + 20057 0.67 0.870002
Target:  5'- aCGGCaCGCGCUU-GAUcagUGCGAUa -3'
miRNA:   3'- cGCCGcGCGCGAAgCUAuaaAUGCUG- -5'
27944 3' -50.7 NC_005886.2 + 24227 0.67 0.859903
Target:  5'- aGCGGCacacuuggagaaCGCGCaagCGGUAgaUACGGCg -3'
miRNA:   3'- -CGCCGc-----------GCGCGaa-GCUAUaaAUGCUG- -5'
27944 3' -50.7 NC_005886.2 + 32556 0.67 0.852963
Target:  5'- aGCGuuCGCGCGUUcguuaUCGAcugUUGCGGCg -3'
miRNA:   3'- -CGCc-GCGCGCGA-----AGCUauaAAUGCUG- -5'
27944 3' -50.7 NC_005886.2 + 32613 0.67 0.844063
Target:  5'- cGCGGUGCGUGCagCGcaugcaggGUUUGCaGCg -3'
miRNA:   3'- -CGCCGCGCGCGaaGCua------UAAAUGcUG- -5'
27944 3' -50.7 NC_005886.2 + 31930 0.67 0.844063
Target:  5'- uGCGuaaGCGCGCGUUgCGAUccggUGCGAg -3'
miRNA:   3'- -CGC---CGCGCGCGAaGCUAuaa-AUGCUg -5'
27944 3' -50.7 NC_005886.2 + 7143 0.68 0.834922
Target:  5'- cCGGUGCucGCGC-UCGGUG---GCGGCg -3'
miRNA:   3'- cGCCGCG--CGCGaAGCUAUaaaUGCUG- -5'
27944 3' -50.7 NC_005886.2 + 13475 0.68 0.834922
Target:  5'- cCGGCGCGUuuuCUUCGAgaUAaacccgaaguucUUUACGGCa -3'
miRNA:   3'- cGCCGCGCGc--GAAGCU--AU------------AAAUGCUG- -5'
27944 3' -50.7 NC_005886.2 + 22135 0.68 0.815958
Target:  5'- uCGaGC-CGCGCgUCGGUAUUUuCGGCg -3'
miRNA:   3'- cGC-CGcGCGCGaAGCUAUAAAuGCUG- -5'
27944 3' -50.7 NC_005886.2 + 23926 0.68 0.796158
Target:  5'- aGCGGaUGCGCuGUagUCGAUGUcgauuccugUGCGACg -3'
miRNA:   3'- -CGCC-GCGCG-CGa-AGCUAUAa--------AUGCUG- -5'
27944 3' -50.7 NC_005886.2 + 24996 0.69 0.742543
Target:  5'- cCGGCucaccggaagcauGCGCGCUUCGAUcaacgcCGGCa -3'
miRNA:   3'- cGCCG-------------CGCGCGAAGCUAuaaau-GCUG- -5'
27944 3' -50.7 NC_005886.2 + 42741 0.7 0.699333
Target:  5'- uGCGauGCGCGUGCgaacugCGAUGcgUACGAUc -3'
miRNA:   3'- -CGC--CGCGCGCGaa----GCUAUaaAUGCUG- -5'
27944 3' -50.7 NC_005886.2 + 22251 0.7 0.699333
Target:  5'- aUGGCGCGCaaaUUGAUGaUUGCGGCg -3'
miRNA:   3'- cGCCGCGCGcgaAGCUAUaAAUGCUG- -5'
27944 3' -50.7 NC_005886.2 + 38504 0.71 0.676709
Target:  5'- cCGGC-CGCGCUUgGAUcagcaagUGCGGCg -3'
miRNA:   3'- cGCCGcGCGCGAAgCUAuaa----AUGCUG- -5'
27944 3' -50.7 NC_005886.2 + 33949 0.71 0.661899
Target:  5'- uCGGCGCG-GCUUCGGUAgucgggaucagguCGGCa -3'
miRNA:   3'- cGCCGCGCgCGAAGCUAUaaau---------GCUG- -5'
27944 3' -50.7 NC_005886.2 + 13603 0.72 0.608116
Target:  5'- uCGGCGCGUaCUUCGGU----ACGGCg -3'
miRNA:   3'- cGCCGCGCGcGAAGCUAuaaaUGCUG- -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.