miRNA display CGI


Results 1 - 20 of 42 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
26037 3' -55.7 NC_005342.2 + 1112 0.67 0.52848
Target:  5'- gUGCUGCGcgcGACGUugcacugcauauccGAUCGCGGcGGCuugcuUCg -3'
miRNA:   3'- -ACGACGU---CUGCG--------------UUAGCGUC-CCGu----AG- -5'
26037 3' -55.7 NC_005342.2 + 2964 0.69 0.427608
Target:  5'- aUGCcGUAGACGC--UCGCcGGcGCGUCc -3'
miRNA:   3'- -ACGaCGUCUGCGuuAGCGuCC-CGUAG- -5'
26037 3' -55.7 NC_005342.2 + 3106 0.69 0.417856
Target:  5'- gGCgacgacagGUAGGCGCGAUCGCcgcgcagacaGGCGUCg -3'
miRNA:   3'- aCGa-------CGUCUGCGUUAGCGuc--------CCGUAG- -5'
26037 3' -55.7 NC_005342.2 + 3781 0.68 0.46791
Target:  5'- cGCaGCGGACGCugGAUCGaaCAGGGaCGUg -3'
miRNA:   3'- aCGaCGUCUGCG--UUAGC--GUCCC-GUAg -5'
26037 3' -55.7 NC_005342.2 + 4983 0.67 0.547122
Target:  5'- uUGCgccccgucucacugGCAGAUGCGG-CGC-GGGCAUg -3'
miRNA:   3'- -ACGa-------------CGUCUGCGUUaGCGuCCCGUAg -5'
26037 3' -55.7 NC_005342.2 + 5171 0.7 0.344965
Target:  5'- cGcCUGCAGGCGCGgcgucggcaccGUCGCaaacucGGGGUAUUc -3'
miRNA:   3'- aC-GACGUCUGCGU-----------UAGCG------UCCCGUAG- -5'
26037 3' -55.7 NC_005342.2 + 6582 0.67 0.531753
Target:  5'- cGCcGCccAGcgcCGCAGUCGCAGGuaAUCa -3'
miRNA:   3'- aCGaCG--UCu--GCGUUAGCGUCCcgUAG- -5'
26037 3' -55.7 NC_005342.2 + 6643 0.68 0.487727
Target:  5'- cGCUcgaGCAGGCGCGcAUCcgccgcuucacguGCGGGGCGc- -3'
miRNA:   3'- aCGA---CGUCUGCGU-UAG-------------CGUCCCGUag -5'
26037 3' -55.7 NC_005342.2 + 7065 0.66 0.599595
Target:  5'- gUGCgccauauccagaccgGCAGcAUGCAAUCGCAGcGCAa- -3'
miRNA:   3'- -ACGa--------------CGUC-UGCGUUAGCGUCcCGUag -5'
26037 3' -55.7 NC_005342.2 + 11086 0.66 0.587221
Target:  5'- cGCUGCGGgaugccgcACGUGAUCGCGucguGcGGCGUg -3'
miRNA:   3'- aCGACGUC--------UGCGUUAGCGU----C-CCGUAg -5'
26037 3' -55.7 NC_005342.2 + 13154 0.66 0.576013
Target:  5'- cGCcgacCGGGCGCGAUacgaucgugUGCAGGcGCGUCg -3'
miRNA:   3'- aCGac--GUCUGCGUUA---------GCGUCC-CGUAG- -5'
26037 3' -55.7 NC_005342.2 + 14049 0.67 0.520871
Target:  5'- gGC-GCAGuAC-CAGUCGCaucguaccAGGGCAUCc -3'
miRNA:   3'- aCGaCGUC-UGcGUUAGCG--------UCCCGUAG- -5'
26037 3' -55.7 NC_005342.2 + 14848 0.68 0.499379
Target:  5'- cUGCUGCAGGCGCGucaGCAGcaccgaGUCg -3'
miRNA:   3'- -ACGACGUCUGCGUuagCGUCccg---UAG- -5'
26037 3' -55.7 NC_005342.2 + 15252 0.71 0.33652
Target:  5'- gUGCUGCGGcgGCGCGGUCaGCAucagcaccGGGCGc- -3'
miRNA:   3'- -ACGACGUC--UGCGUUAG-CGU--------CCCGUag -5'
26037 3' -55.7 NC_005342.2 + 15779 0.67 0.520871
Target:  5'- aUGCUGCGGcucguCGCGG-CGCugaAGGGCGc- -3'
miRNA:   3'- -ACGACGUCu----GCGUUaGCG---UCCCGUag -5'
26037 3' -55.7 NC_005342.2 + 16407 0.78 0.106658
Target:  5'- cGCUGCAGcucuacACGCugaucucgcCGCAGGGCAUCu -3'
miRNA:   3'- aCGACGUC------UGCGuua------GCGUCCCGUAG- -5'
26037 3' -55.7 NC_005342.2 + 16922 0.67 0.531753
Target:  5'- gGCauUGCGGGCGCcg-UGCucGGCGUCg -3'
miRNA:   3'- aCG--ACGUCUGCGuuaGCGucCCGUAG- -5'
26037 3' -55.7 NC_005342.2 + 17101 0.67 0.553752
Target:  5'- gGCgGC-GACGCGuUCGCcGGGC-UCg -3'
miRNA:   3'- aCGaCGuCUGCGUuAGCGuCCCGuAG- -5'
26037 3' -55.7 NC_005342.2 + 17169 0.68 0.488781
Target:  5'- -cCUGCAGGCGCucgcGUCGUucGGCGUg -3'
miRNA:   3'- acGACGUCUGCGu---UAGCGucCCGUAg -5'
26037 3' -55.7 NC_005342.2 + 17332 0.66 0.587221
Target:  5'- cGCUGUAuaGCGCA--CGCAGcGGCGUg -3'
miRNA:   3'- aCGACGUc-UGCGUuaGCGUC-CCGUAg -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.