miRNA display CGI


Results 1 - 20 of 56 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
27992 3' -59.3 NC_005886.2 + 42096 0.66 0.476235
Target:  5'- cGCGCUucgcaGGCGCACCGuuggguuaaauguaCCGCGugGUCg -3'
miRNA:   3'- -UGCGGc----UUGCGUGGCc-------------GGCGUugCAG- -5'
27992 3' -59.3 NC_005886.2 + 38352 0.66 0.472258
Target:  5'- cACGCCc-GCGCACguCGGuUCGC-ACGUCg -3'
miRNA:   3'- -UGCGGcuUGCGUG--GCC-GGCGuUGCAG- -5'
27992 3' -59.3 NC_005886.2 + 11760 0.66 0.472258
Target:  5'- cGCGCCGAcgAUGCGaucgacgUGGCCGgGAUGUa -3'
miRNA:   3'- -UGCGGCU--UGCGUg------GCCGGCgUUGCAg -5'
27992 3' -59.3 NC_005886.2 + 29703 0.66 0.472258
Target:  5'- cACGUCGGGCGUACCuucGCCGUcGCa-- -3'
miRNA:   3'- -UGCGGCUUGCGUGGc--CGGCGuUGcag -5'
27992 3' -59.3 NC_005886.2 + 8771 0.66 0.462391
Target:  5'- gACGCCGGaaAUGU-UCGGCaugcuaGCAAUGUCg -3'
miRNA:   3'- -UGCGGCU--UGCGuGGCCGg-----CGUUGCAG- -5'
27992 3' -59.3 NC_005886.2 + 15083 0.66 0.462391
Target:  5'- uGCGCCGAauucAUGUAUCGa-CGCGACGUa -3'
miRNA:   3'- -UGCGGCU----UGCGUGGCcgGCGUUGCAg -5'
27992 3' -59.3 NC_005886.2 + 32505 0.66 0.462391
Target:  5'- aACGCuucgaguuCGAAUGCaucACCGGCCGCuGCa-- -3'
miRNA:   3'- -UGCG--------GCUUGCG---UGGCCGGCGuUGcag -5'
27992 3' -59.3 NC_005886.2 + 43761 0.66 0.452634
Target:  5'- gACGCUG-GCGCAgCguugGGCgCGCAGCaGUCg -3'
miRNA:   3'- -UGCGGCuUGCGUgG----CCG-GCGUUG-CAG- -5'
27992 3' -59.3 NC_005886.2 + 29016 0.66 0.44299
Target:  5'- aACGCCGAcAUGCugCGa-CGCGAUGUUc -3'
miRNA:   3'- -UGCGGCU-UGCGugGCcgGCGUUGCAG- -5'
27992 3' -59.3 NC_005886.2 + 44763 0.67 0.405613
Target:  5'- uUGCCGuuCGauCCGGCCGCAugGg- -3'
miRNA:   3'- uGCGGCuuGCguGGCCGGCGUugCag -5'
27992 3' -59.3 NC_005886.2 + 29303 0.67 0.405613
Target:  5'- uAUGCCGGccgcugcaaACGCGCCGuucgaugaaGCCGCugcGCGUg -3'
miRNA:   3'- -UGCGGCU---------UGCGUGGC---------CGGCGu--UGCAg -5'
27992 3' -59.3 NC_005886.2 + 46892 0.67 0.405613
Target:  5'- uGCGCgaCGAGUGCGCCGGCaaGCAuGCGUUc -3'
miRNA:   3'- -UGCG--GCUUGCGUGGCCGg-CGU-UGCAG- -5'
27992 3' -59.3 NC_005886.2 + 15829 0.67 0.402891
Target:  5'- gAUGCgGAGCGCGCCGaagaagacccggauGCagcaGUAGCGUUg -3'
miRNA:   3'- -UGCGgCUUGCGUGGC--------------CGg---CGUUGCAG- -5'
27992 3' -59.3 NC_005886.2 + 36282 0.67 0.396584
Target:  5'- -gGCaCGGGCgGCAUCGGCgGCGGCaUCg -3'
miRNA:   3'- ugCG-GCUUG-CGUGGCCGgCGUUGcAG- -5'
27992 3' -59.3 NC_005886.2 + 16204 0.67 0.396584
Target:  5'- cUGCCGGguuACGCGCCGGUC-UGACGg- -3'
miRNA:   3'- uGCGGCU---UGCGUGGCCGGcGUUGCag -5'
27992 3' -59.3 NC_005886.2 + 40106 0.67 0.387684
Target:  5'- cUGCCGAACauCGCCGGCaucaGCAugGcCc -3'
miRNA:   3'- uGCGGCUUGc-GUGGCCGg---CGUugCaG- -5'
27992 3' -59.3 NC_005886.2 + 44104 0.67 0.378917
Target:  5'- gAUGCCGAccccCGuCGCUGcGCCGCAAC-UCg -3'
miRNA:   3'- -UGCGGCUu---GC-GUGGC-CGGCGUUGcAG- -5'
27992 3' -59.3 NC_005886.2 + 46811 0.68 0.370285
Target:  5'- -aGUCGAACGCaugcuuGCCGGC-GCAcuCGUCg -3'
miRNA:   3'- ugCGGCUUGCG------UGGCCGgCGUu-GCAG- -5'
27992 3' -59.3 NC_005886.2 + 31127 0.68 0.359264
Target:  5'- cACGCCaguuGCGUuaggucggaagcuuGCCGGCCGCAaaggguucaaGCGUg -3'
miRNA:   3'- -UGCGGcu--UGCG--------------UGGCCGGCGU----------UGCAg -5'
27992 3' -59.3 NC_005886.2 + 41666 0.68 0.353426
Target:  5'- uCGUCau-CGCcCCGGCCGCGAUGaUCg -3'
miRNA:   3'- uGCGGcuuGCGuGGCCGGCGUUGC-AG- -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.