miRNA display CGI


Results 1 - 20 of 57 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
10709 3' -59.3 NC_002794.1 + 188939 0.66 0.808712
Target:  5'- aGGCCcgcuGUCC-GGG-CGuGCGCAGGUUc -3'
miRNA:   3'- -UUGGu---UAGGuCCCgGCuCGCGUCCAG- -5'
10709 3' -59.3 NC_002794.1 + 192399 0.66 0.808712
Target:  5'- cGCCGcgCCGGGGUaguCGAaacgccGCGaCGGGUCc -3'
miRNA:   3'- uUGGUuaGGUCCCG---GCU------CGC-GUCCAG- -5'
10709 3' -59.3 NC_002794.1 + 29828 0.66 0.808712
Target:  5'- gAGCaGGUCCGGGGUCGugcagGGgGCAGGa- -3'
miRNA:   3'- -UUGgUUAGGUCCCGGC-----UCgCGUCCag -5'
10709 3' -59.3 NC_002794.1 + 57398 0.66 0.808712
Target:  5'- cACCGGcUCCGGcgcccgcguGGCCGGcGUGCuGGUCg -3'
miRNA:   3'- uUGGUU-AGGUC---------CCGGCU-CGCGuCCAG- -5'
10709 3' -59.3 NC_002794.1 + 59123 0.66 0.808712
Target:  5'- cGGCCA--CCGaGGCCGAcuucGCGCAGGg- -3'
miRNA:   3'- -UUGGUuaGGUcCCGGCU----CGCGUCCag -5'
10709 3' -59.3 NC_002794.1 + 25115 0.66 0.800013
Target:  5'- gGACCGGUCgagaucgagCGGGGCaCGcGCGCAcGGUa -3'
miRNA:   3'- -UUGGUUAG---------GUCCCG-GCuCGCGU-CCAg -5'
10709 3' -59.3 NC_002794.1 + 110280 0.66 0.791169
Target:  5'- cGGCCGccGUCCucGGGCCcgaGAGCcGCGGGg- -3'
miRNA:   3'- -UUGGU--UAGGu-CCCGG---CUCG-CGUCCag -5'
10709 3' -59.3 NC_002794.1 + 3502 0.66 0.791169
Target:  5'- -cCCGGUcaaagaggaaCCGGuGGCCGAGUGaGGGUCc -3'
miRNA:   3'- uuGGUUA----------GGUC-CCGGCUCGCgUCCAG- -5'
10709 3' -59.3 NC_002794.1 + 7165 0.66 0.791169
Target:  5'- uGACCAucuuuGUCCgguGGGGCUGAGgGgGGGg- -3'
miRNA:   3'- -UUGGU-----UAGG---UCCCGGCUCgCgUCCag -5'
10709 3' -59.3 NC_002794.1 + 102077 0.66 0.790277
Target:  5'- cGACCug-CCGcGGGCCGAcgaGCcgccgcccacgguGCGGGUCa -3'
miRNA:   3'- -UUGGuuaGGU-CCCGGCU---CG-------------CGUCCAG- -5'
10709 3' -59.3 NC_002794.1 + 47742 0.66 0.783091
Target:  5'- cGCCgGGUCCacguGGcGGCCGuggucgcggcacaacGCGCAGGUCg -3'
miRNA:   3'- uUGG-UUAGG----UC-CCGGCu--------------CGCGUCCAG- -5'
10709 3' -59.3 NC_002794.1 + 147208 0.66 0.773076
Target:  5'- uGCCGucgggCCGGGGCCGgGGCGUuGG-Cg -3'
miRNA:   3'- uUGGUua---GGUCCCGGC-UCGCGuCCaG- -5'
10709 3' -59.3 NC_002794.1 + 119947 0.66 0.773076
Target:  5'- cAGCCGcgCCAGcaGGUCGAGCGUgcucuGGUg -3'
miRNA:   3'- -UUGGUuaGGUC--CCGGCUCGCGu----CCAg -5'
10709 3' -59.3 NC_002794.1 + 130607 0.66 0.763843
Target:  5'- cGCCGAUCguGGGCCGguugacGGUGUucGGcGUCg -3'
miRNA:   3'- uUGGUUAGguCCCGGC------UCGCG--UC-CAG- -5'
10709 3' -59.3 NC_002794.1 + 137771 0.67 0.745051
Target:  5'- aGAgCAGgauGGGGUCGAgGUGCAGGUCg -3'
miRNA:   3'- -UUgGUUaggUCCCGGCU-CGCGUCCAG- -5'
10709 3' -59.3 NC_002794.1 + 86532 0.67 0.745051
Target:  5'- cGACCGGaugcCCcGGGCCGAGC-CGGGa- -3'
miRNA:   3'- -UUGGUUa---GGuCCCGGCUCGcGUCCag -5'
10709 3' -59.3 NC_002794.1 + 86364 0.67 0.745051
Target:  5'- cGACCGGaugcCCcGGGCCGAGC-CGGGa- -3'
miRNA:   3'- -UUGGUUa---GGuCCCGGCUCGcGUCCag -5'
10709 3' -59.3 NC_002794.1 + 86172 0.67 0.745051
Target:  5'- cGACCGGaugcCCcGGGCCGAGC-CGGGa- -3'
miRNA:   3'- -UUGGUUa---GGuCCCGGCUCGcGUCCag -5'
10709 3' -59.3 NC_002794.1 + 87030 0.67 0.735509
Target:  5'- cGCagGAUCCGGGGaCCG-GCGCGGcUCg -3'
miRNA:   3'- uUGg-UUAGGUCCC-GGCuCGCGUCcAG- -5'
10709 3' -59.3 NC_002794.1 + 104286 0.67 0.735509
Target:  5'- uGCCGAacaggaUCUcGGGCCGGGUGCacuugAGGUUg -3'
miRNA:   3'- uUGGUU------AGGuCCCGGCUCGCG-----UCCAG- -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.